1 ab_initio_repeatmask Interspersed repeats and low complexity sequence identified by RepeatMasker using ab initio repeat profiles specific to the species. Repeats (from Recon) 1 1 5132 2012-02-28 13:21:21 5132 2012-02-28 13:21:21 \N 1
2 assembly_patch_ensembl Annotation produced by aligning human cDNA sequences to the genome using Exonerate's cdna2genome model, which utilises annotation identifying the coding regions of the cDNA sequences, along with protein evidence from UniProtKB, from various species, aligned to the genome using GeneWise. This annotation is used where there is no manual annotation and annotation could not be projected from the primary assembly. Ensembl assembly patch 0 1 5132 2011-05-11 14:48:25 5132 2011-05-11 14:48:25 3 1
3 bacends Bacterial Artificial Chromosome (end sequences) of library clones that were used in the sequencing project are aligned to the genome using SSAHA2. BAC ends 1 1 \N \N \N \N 24 1
4 bgi_augustus_geneset Gene predictions generated by the BGI using Augustus. Augustus BGI predictions 0 1 5132 2012-04-05 13:08:56 5132 2012-04-05 13:08:56 57 1
5 bgi_genewise_geneset Gene predictions generated by the BGI using Genewise to align human and dog Ensembl translations. Genewise BGI predictions 0 1 5132 2012-04-05 13:08:51 5132 2012-04-05 13:08:51 57 1
6 bgi_genscan_geneset Gene predictions generated by the BGI using Genscan. Genscan BGI predictions 0 1 5132 2012-04-05 13:08:48 5132 2012-04-05 13:08:48 57 1
7 blastmirna Positions of miRNAs along the genome are shown. A BLASTN of genomic sequence regions against miRBase sequences is performed, and hits are clustered and filtered by E value. Aligned genomic sequence is then checked for possible secondary structure using RNAFold. If evidence is found that the genomic sequence could form a stable hairpin structure the locus is used to create a miRNA gene model. The resulting BLAST hit is used as supporting evidence for the miRNA gene. See article. miRNAs (miRBase) 0 1 124435 2020-12-04 13:30:15 124435 2020-12-04 13:30:15 \N 0
8 blastprodom ProDom domains. ProDom 1 1 105967 2019-05-01 11:02:51 105967 2019-05-01 11:02:51 15 1
10 brepepx Caenorhabditis brenneri proteins aligned by WU-BlastX C.brenneri proteins 1 1 104856 2012-03-20 11:57:01 104856 2012-03-20 11:57:01 \N 1
467 ensembl_havana_ig_gene Immunoglobulin (Ig) and T-cell receptor (TcR) annotation from Ensembl and Havana. Havana annotation was imported from the Havana project's manually curated IG gene set. Ensembl annotation was imported from the IMGT database using Exonerate. Click here for more details about the Ensembl annotation. Ensembl/Havana merge Ig/T-cell receptor 0 1 5132 2012-03-28 13:16:57 104957 2015-03-25 15:24:16 2 1
12 brigpepx Caenorhabditis briggsae proteins aligned by WU-BlastX C.briggsae proteins 1 1 104856 2012-03-20 11:57:34 104856 2012-03-20 11:57:34 \N 1
15 ccds Protein coding sequences agreed upon by the Consensus Coding Sequence project, or CCDS. CCDS set 1 1 \N \N \N \N 46 1
16 ccds_import Protein coding sequences agreed upon by the Consensus Coding Sequence project, or CCDS. CCDS set 1 1 \N \N \N \N 13 1
17 cdm Tetraodon cDNAs were prepared from 7 adult tissues by Genoscope, and aligned using BLAST and EST2GENOME (R. Mott, Comput Appl Biosci. 1997 13:477-8). Tetraodon cDNAs 1 1 101214 2015-06-19 12:36:20 101214 2015-06-19 12:36:20 31 1
18 cdna_exonerate cDNA sequences are mapped onto the genome using Exonerate. cDNAs 0 1 105967 2019-08-16 10:14:25 105967 2019-08-16 10:14:25 9 0
19 cdna_update The latest set of cDNAs for this species from the European Nucleotide Archive and NCBI RefSeq were aligned to the current genome using Exonerate. cDNA update 1 1 254412 2022-05-25 11:18:28 254412 2022-05-25 11:18:28 68 1
20 celegans_est Caenorhabditis elegans ESTs aligned to the genome using BLAT C.elegans ESTs 1 1 104856 2012-03-20 13:46:30 104856 2012-03-20 13:46:30 36 1
21 celegans_mrna Caenorhabditis elegans mRNAs are aligned to the genome using BLAT C.elegans mRNAs 1 1 104856 2012-03-20 13:46:40 104856 2012-03-20 13:46:40 9 1
22 chicken_cdna Chicken cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Chicken cDNAs 1 1 105967 2019-08-23 10:40:56 105967 2019-08-23 10:40:56 9 0
23 chicken_est Chicken 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Chicken ESTs 1 1 5132 2012-04-05 13:06:17 5132 2012-04-05 13:06:17 34 0
24 chicken_protein Chicken protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Chicken proteins 1 1 5132 2012-04-05 13:06:24 5132 2012-04-05 13:06:24 \N 1
25 chicken_repeatmask RepeatMasker is used to find repeats and low-complexity sequences using a chicken repeat library. This track usually shows repeats alone (not low-complexity sequences). Repeats (Chicken) 1 1 \N \N \N \N \N 1
26 chimp_cdna Pan troglodytes cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Chimpanzee cDNAs 1 1 5132 2012-04-05 13:06:36 5132 2012-04-05 13:06:36 9 0
27 chimp_est Pan troglodytes 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Chimpanzee ESTs 1 1 5132 2012-04-05 13:06:45 5132 2012-04-05 13:06:45 34 0
430 cat_ensembl_protein Cat protein sequences from Ensembl are aligned to the genome using Exonerate. Cat Ensembl proteins 1 1 97245 2012-01-12 15:07:06 101214 2015-06-19 12:05:44 \N 1
29 chimp_protein Pan troglodyes protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Chimpanzee proteins 1 1 5132 2012-04-05 13:06:58 5132 2012-04-05 13:06:58 \N 1
30 cint_cdna Ciona intestinalis cDNA sequences from the Ghost Database are aligned to the genome using Exonerate. C.intestinalis cDNAs 1 1 105967 2019-08-23 10:42:16 105967 2019-08-23 10:42:16 9 0
31 cint_est Ciona intestinalis 'Expressed Sequence Tags' (ESTs) from dbEST and the Ghost Database are aligned to the genome using Exonerate. C.intestinalis ESTs 1 1 105967 2019-08-23 10:42:29 105967 2019-08-23 10:42:29 34 0
32 cow_cdna Cow cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Cow cDNAs 1 1 105967 2019-08-23 10:39:59 105967 2019-08-23 10:39:59 9 0
33 cow_est Cow 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Cow ESTs 1 1 5132 2012-04-05 13:13:17 5132 2012-04-05 13:13:17 34 1
34 cow_protein Cow protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Cow proteins 1 1 5132 2012-04-05 13:13:24 5132 2012-04-05 13:13:24 \N 1
35 cpg CpG islands are regions of nucleic acid sequence containing a high number of adjacent cytosine guanine pairs (along one strand). Usually unmethylated, they are associated with promoters and regulatory regions. They are determined from the genomic sequence using a program written by G. Micklem, similar to newcpgreport in the EMBOSS package. CpG islands 0 1 5132 2013-08-27 13:29:47 5132 2013-08-27 13:29:47 \N 1
36 cyt Cytokine model, manually curated by Genoscope Cytokine 1 1 5132 2011-05-12 13:24:25 5132 2011-05-12 13:24:25 10 1
37 deletion Feature imported from FlyBase. Deletion 1 0 \N \N \N \N \N 0
38 dog_ensembl_protein Dog protein sequences from Ensembl are aligned to the genome using Exonerate. Dog Ensembl protein 1 1 101214 2015-06-19 12:05:44 101214 2015-06-19 12:05:44 90 1
39 dog_est Dog 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Dog ESTs 1 1 5132 2012-04-05 13:13:56 5132 2012-04-05 13:13:56 34 1
40 dog_protein Dog protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Dog proteins 1 1 5132 2012-04-05 13:14:03 5132 2012-04-05 13:14:03 \N 1
41 drosophila_cdna_all Drosophila melanogaster cDNA sequences from BDGP are aligned to the genome using Exonerate. Fly cDNA 0 1 105967 2015-01-09 11:49:08 105967 2015-01-09 11:49:08 9 1
42 drosophila_est Drosophila melanogaster 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Fly EST 0 1 105967 2015-01-09 11:49:41 105967 2015-01-09 11:49:41 34 1
43 drosophila_gold_cdna Drosophila melanogaster cDNA sequences from the Drosophila Gold Collection are aligned to the genome using Exonerate. Fly gold cDNA 0 1 105967 2015-01-09 11:50:19 105967 2015-01-09 11:50:19 9 1
44 dust Dust is a program that identifies low-complexity sequences (regions of the genome with a biased distribution of nucleotides, such as a repeat). The Dust module is widely used with BLAST to prevent 'sticky' regions from determining false hits. Low complexity (Dust) 0 1 \N \N \N \N \N 1
45 eg3_fr Evolutionary conserved regions ("Ecores") are inferred from alignments of the Fugu and Tetraodon genomes by Exofish, H. Roest Crollius et al., and grouped into contiguous, consistent sets ("Ecotigs") Takifugu Ecores 1 1 \N \N \N \N 50 1
46 eg3_gg Evolutionary conserved regions("Ecores") are inferred from alignments of the Chicken and Tetraodon genomes by Exofish, H. Roest Crollius et al., and grouped into contiguous, consistent sets ("Ecotigs") Chicken Ecores 1 1 \N \N \N \N 50 1
47 eg3_hs Evolutionary conserved regions ("Ecores") are inferred from alignments of the Human and Tetraodon genomes by Exofish, H. Roest Crollius et al., and grouped into contiguous, consistent sets ("Ecotigs") Human Ecores 1 1 \N \N \N \N 50 1
48 eg3_mm Evolutionary conserved regions ("Ecores") are inferred from alignments of the Mouse and Tetraodon genomes by Exofish, H. Roest Crollius et al., and grouped into contiguous, consistent sets ("Ecotigs") Mouse Ecores 1 1 \N \N \N \N 50 1
49 eg3_rn Evolutionary conserved regions ("Ecores") are inferred from alignments of the Rat and Tetraodon genomes by Exofish, H. Roest Crollius et al., and grouped into contiguous, consistent sets ("Ecotigs") Rat Ecores 1 1 \N \N \N \N 50 1
50 enhancer Feature imported from FlyBase. Enhancer 1 0 \N \N \N \N \N 0
51 ensembl Annotation produced by the Ensembl genebuild. Ensembl 0 1 124435 2020-06-02 15:32:15 124435 2020-06-02 15:32:15 79 1
52 chicken_ensembl_protein Chicken protein sequences from Ensembl are aligned to the genome using Exonerate. Chicken Ensembl proteins 1 1 105967 2019-08-24 09:43:47 105967 2019-08-24 09:43:47 \N 0
53 ensembl_havana_gene Annotation for this gene includes both automatic annotation from Ensembl and Havana manual curation, see article. Ensembl/Havana merge 0 1 124435 2020-06-02 15:39:52 124435 2020-06-02 15:39:52 2 1
54 ensembl_havana_transcript Transcript where the Ensembl genebuild transcript and the Havana manual annotation have the same sequence, for every base pair. See article. Ensembl/Havana merge 0 1 124435 2020-06-02 15:40:00 124435 2020-06-02 15:40:00 2 1
55 ensembl_ig_gene Immunoglobulin (Ig) and T-cell receptor (TcR) annotation was imported from the IMGT database using Exonerate. Ensembl Ig/T-cell receptor 0 1 5132 2012-11-15 17:39:42 5132 2012-11-15 17:39:42 \N 1
56 ensembl_projection Models were annotated by projecting transcripts annotated by Ensembl from a reference genome, through a BLASTZ DNA alignment of this genome to a reference genome Projected from reference 1 1 122899 2016-07-27 21:20:44 122899 2016-07-27 21:20:44 80 1
57 eponine Transcription start sites predicted by Eponine-TSS. TSS (Eponine) 0 1 102019 2013-04-03 16:02:49 102019 2013-04-03 16:02:49 \N 1
58 est2genome_human Alignment of human ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Human EST (EST2genome) 1 0 \N \N \N \N 34 1
59 est2genome_mouse Alignment of mouse ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Mouse EST (EST2genome) 1 0 \N \N \N \N 34 1
60 est2genome_other Alignment of ESTs (expressed sequence tags) from another species to the genome using the program Est2genome. ESTs are from dbEST Other EST (EST2genome) 1 0 \N \N \N \N 34 1
61 estgene ESTs are mapped on the genome using Exonerate. Genes (including isoforms) are inferred using the Cluster-Merge algorithm. EST-based 1 1 97245 2012-11-16 10:25:04 97245 2012-11-16 10:25:04 47 1
62 est_3prim_savi Ciona savignyi 3' 'Expressed Sequence Tags' (ESTs) from uncorrected Ghost Database data are aligned with Exonerate. C.savignyi 3' EST 1 1 105967 2019-08-24 09:53:05 105967 2019-08-24 09:53:05 34 0
63 est_5prim_savi Ciona savignyi 3' 'Expressed Sequence Tags' (ESTs) from uncorrected Ghost Database data are aligned with Exonerate. C.savignyi 5' EST 1 1 105967 2019-08-24 09:52:50 105967 2019-08-24 09:52:50 34 0
64 est_bestn_3prim 3' 'Expressed Sequence Tags' (ESTs) are mapped on the genome using Exonerate, and the best hit is shown. 3' EST (best hit) 1 0 5132 2012-04-04 21:59:49 5132 2012-04-04 21:59:49 \N 0
65 est_bestn_5prim 5' 'Expressed Sequence Tags' (ESTs) are mapped on the genome using Exonerate, and the best hit is shown. 5' EST (best hit) 1 0 5132 2012-04-04 21:59:58 5132 2012-04-04 21:59:58 \N 0
66 est_embl 'Expressed Sequence Tags' (ESTs) from the EMBL database are aligned to the genome using Exonerate. ESTs (ENA) 1 1 105967 2019-08-24 09:53:22 105967 2019-08-24 09:53:22 34 0
67 est_exonerate 'Expressed Sequence Tags' (ESTs) are mapped onto the genome using Exonerate. ESTs 0 1 105967 2020-11-04 22:16:34 105967 2020-11-04 22:16:34 42 1
68 exonerate_ig_gene Immunoglobulin (Ig) and T-cell receptor (TcR) annotation was imported from the IMGT database and aligned to the genome using Exonerate. Ig and TcR 1 0 5132 2011-05-12 13:24:25 5132 2011-05-12 13:24:25 \N 0
69 expression_profile imported expression profiles from WormBase Expression profile 1 0 104856 2012-03-20 11:59:50 104856 2012-03-20 11:59:50 \N 0
70 fantom_cage These are short sequence tags from the start sites of polyA transcripts. These ditags were downloaded from the Riken Fantom project and aligned to the genome using Exonerate. Fantom CAGE tags 1 1 \N \N \N \N \N 1
71 fantom_gis_pet These are short sequence tags from the start sites of polyA transcripts. These ditags were downloaded from the Riken Fantom project and aligned to the genome using Exonerate. Fantom GIS ditags 1 1 \N \N \N \N \N 1
72 fantom_gis_pet_raw These are short sequence tags from the start sites of polyA transcripts. These ditags were downloaded from the Riken Fantom project and aligned to the genome using Exonerate. FANTOM GIS ditags raw 1 1 \N \N \N \N \N 1
73 fantom_gsc_pet These are short sequence tags from the start sites of polyA transcripts. These ditags were downloaded from the Riken Fantom project and aligned to the genome using Exonerate. Fantom GSC ditags 1 1 \N \N \N \N \N 1
74 fantom_gsc_pet_raw These are short sequence tags from the start sites of polyA transcripts. These ditags were downloaded from the Riken Fantom project and aligned to the genome using Exonerate. Fantom GSC raw 1 1 \N \N \N \N \N 1
75 fgenesh Ab initio prediction of protein coding genes, based on the genomic sequence alone AA Salamov et al., Genome Res. 2000 4:516-22. FGENESH prediction 0 1 105967 2020-06-12 15:57:02 105967 2020-06-12 15:57:02 5055 1
76 firstef First Exon Finder (First EF) predicts positions of the first exons of transcripts, both coding and non-coding, using the sequence to identify features such as CpG islands and promoter regions. First EF 0 1 \N \N \N \N \N 1
77 fish_protein Fish protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Fish proteins 1 1 5132 2012-04-05 13:15:59 5132 2012-04-05 13:15:59 \N 1
78 flybase Feature imported from FlyBase. Genes 0 1 105967 2019-05-01 10:54:17 105967 2019-05-01 10:54:17 5115 1
79 fosends End sequences of Fosmid library clones used in the sequencing project aligned to the genome using SSAHA2. FOS ends 1 1 \N \N \N \N 24 1
80 fosmid Vancouver fosmids mapped to the C.elegans genome (available through GeneService) fosmid 0 1 105967 2019-08-16 10:10:40 105967 2019-08-16 10:10:40 \N 1
81 fugu_cdna Takifugu cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Fugu cDNAs 1 1 5132 2012-04-05 13:16:11 5132 2012-04-05 13:16:11 9 1
82 fugu_est Takifugu 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Fugu ESTs 1 1 5132 2012-04-05 13:16:23 5132 2012-04-05 13:16:23 34 1
83 fugu_protein Takifugu protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Fugu proteins 1 1 5132 2012-04-05 13:16:29 5132 2012-04-05 13:16:29 \N 1
85 gadflyx FlyBase proteins aligned by WU-BlastX Fly proteins 1 1 104856 2012-03-20 13:30:48 104856 2012-03-20 13:30:48 \N 1
86 gene3d CATH/Gene3D families. Gene3D 1 1 105967 2019-05-01 11:02:19 105967 2019-05-01 11:02:19 15 1
87 genedensity Gene density as calculated by gene_density_calc.pl. Genes (density) 0 0 \N \N \N \N \N 1
88 genefinder Ab initio prediction of protein coding genes by Genefinder (C. Wilson, L. Hilyer, and P. Green, unpublished). Genefinder predictions 1 1 5132 2012-04-05 13:16:36 5132 2012-04-05 13:16:36 \N 1
89 genscan Ab initio prediction of protein coding genes by Genscan. The splice site models used are described in more detail in C. Burge, Modelling dependencies in pre-mRNA splicing signals. 1998 In Salzberg, S., Searls, D. and Kasif, S., eds. Computational Methods in Molecular Biology, Elsevier Science, Amsterdam, 127-163. Genscan predictions 0 1 5132 2012-04-05 13:16:39 5132 2012-04-05 13:16:39 \N 1
90 gid Ab initio prediction of protein coding genes by Geneid, with parameters customised for accuracy in Tetraodon sequences. Geneid prediction 1 1 \N \N \N \N \N 1
91 gorilla_cdna Gorilla protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Gorilla cDNAs 1 1 5132 2012-04-05 13:17:19 5132 2012-04-05 13:17:19 9 0
92 gorilla_protein Gorilla protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Gorilla proteins 1 1 5132 2012-04-05 13:17:26 5132 2012-04-05 13:17:26 \N 1
93 gorilla_merged_rnaseq Illumina paired-end reads from Western lowland gorilla generated at the Wellcome Trust Sanger Institute (WTSI) aligned to the genome using Exonerate. Gorilla RNASeq 0 0 5132 2012-04-05 13:18:02 5132 2012-04-05 13:18:02 \N 1
94 green_anole_cdna Green anole cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Anole cDNAs 1 1 105967 2019-08-23 09:59:08 105967 2019-08-23 09:59:08 9 0
95 green_anole_est Green anole 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Anole ESTs 1 1 105967 2019-08-23 09:58:54 105967 2019-08-23 09:58:54 34 0
96 green_anole_protein Green anole protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Anole proteins 1 1 5132 2012-04-05 13:19:17 5132 2012-04-05 13:19:17 \N 1
97 gsc Ab initio prediction of protein coding genes by Genscan, with parameters customised for accuracy in Tetraodon sequences GSC 1 1 \N \N \N \N \N 1
98 gsten Annotation generated by Genoscope, combining evidence from Geneid, Genscan, GeneWise and Exofish predictions with alignments of Tetraodon cDNAs to the genome. This was done automatically using GAZE with a custom-designed configuration and gene structure model. Genoscope import 1 1 5132 2012-04-05 13:19:27 5132 2012-04-05 13:19:27 55 1
99 guineapig_cdna Guineapig cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Guinea pig cDNAs 1 1 5132 2012-04-05 13:19:39 5132 2012-04-05 13:19:39 9 0
100 guineapig_est Guineapig 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Guinea pig ESTs 1 1 5132 2012-04-05 13:19:47 5132 2012-04-05 13:19:47 34 0
101 guineapig_protein Guineapig protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Guinea pig proteins 1 1 5132 2012-04-05 13:19:53 5132 2012-04-05 13:19:53 \N 1
102 gws_uni Alignment of a Uniprot protein to the genome by GeneWise. UniProt proteins 1 1 5132 2012-04-05 13:19:56 5132 2012-04-05 13:19:56 \N 1
103 havana Manual annotation (determined on a case-by-case basis) from the Havana project. Havana 0 1 161 2019-06-27 08:50:41 161 2019-06-27 08:50:41 2 1
8413 astyanax_mexicanus_female_bones_rnaseq_daf Spliced-read support for female bones female bones intron-spanning reads 1 1 \N 2019-06-28 14:04:59 \N 2019-06-28 14:04:59 5957 1
104 havana_ig_gene Immunoglobulin (Ig) and T-cell receptor (TcR) annotation imported from the manually curated IG gene set from the Havana project. Havana Ig/T-cell receptor 0 1 161 2019-06-27 08:49:33 161 2019-06-27 08:49:33 2 1
105 hmmpanther PANTHER families. PANTHER 1 1 105967 2019-05-01 11:03:50 105967 2019-05-01 11:03:50 15 1
106 horse_cdna Horse cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Horse cDNAs 1 1 5132 2012-04-05 13:20:32 5132 2012-04-05 13:20:32 9 1
107 horse_est Horse 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Horse ESTs 1 1 5132 2012-04-05 13:20:37 5132 2012-04-05 13:20:37 34 1
108 horse_protein Horse protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Horse proteins 1 1 5132 2012-04-05 13:20:43 5132 2012-04-05 13:20:43 \N 1
109 hox HOX genes were manually curated by Genoscope. HOX (Genoscope) 1 1 5132 2012-04-05 13:20:51 5132 2012-04-05 13:20:51 10 1
110 human_cdna Human cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Human cDNAs 1 1 105967 2019-08-23 10:38:36 105967 2019-08-23 10:38:36 9 0
111 human_cdna2genome Homo Sapiens cDNAs from NCBI RefSeq and EMBL are aligned to the genome using Exonerate cdna2genome model. Human cDNAs (cdna2genome) 1 1 5132 2012-04-05 13:21:35 5132 2012-04-05 13:21:35 5 0
112 human_ensembl_protein Human protein sequences from Ensembl are aligned to the genome using Exonerate or GeneWise. Human Ensembl protein 1 1 105967 2019-08-24 09:59:43 105967 2019-08-24 09:59:43 \N 0
113 human_est Homo sapiens 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Human ESTs 1 1 107111 2014-03-28 17:17:33 107111 2014-03-28 17:17:33 34 1
114 human_one2one_mus_orth Human ensembl transcripts that are one-to-one orthologues with mouse are aligned to the genome using Exonerate. Human Ensembl proteins 1 1 105967 2019-08-23 11:56:47 105967 2019-08-23 11:56:47 \N 0
115 human_protein Human protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Human proteins 1 1 105967 2019-08-23 11:46:08 105967 2019-08-23 11:46:08 \N 0
116 human_refseq Human proteins from NCBI RefSeq used in the genebuild are aligned to the genome using GeneWise. Human proteins (RefSeq) 1 1 124435 2020-06-02 15:41:09 124435 2020-06-02 15:41:09 \N 1
117 ikmc_es_cells_available IKMC_ES_cells_available IKMC ES cells available 1 0 \N \N \N \N \N 1
118 ikmc_mice_available IKMC_Mice_available IKMC Mice available 1 0 \N \N \N \N \N 1
119 ikmc_no_products_available_yet IKMC_No_products_available_yet IKMC No products available yet 1 0 \N \N \N \N \N 1
120 ikmc_vector_available IKMC_Vector_available IKMC Vector available 1 0 \N \N \N \N \N 1
121 insertion_site Feature imported fromFlyBase gff files. Insertion site 1 0 \N \N \N \N \N 0
122 ipi_humanp Human IPI proteins aligned by WU-BlastX Human proteins 1 1 104856 2012-03-20 13:31:33 104856 2012-03-20 13:31:33 \N 1
123 ipi_humanx Human IPI proteins aligned by WU-BlastX Human proteins 1 1 104856 2012-03-20 13:31:46 104856 2012-03-20 13:31:46 \N 1
124 jappepp Caenorhabditis japonica proteins aligned by WU-BlastP C.japonica proteins 1 1 104856 2012-03-20 11:58:55 104856 2012-03-20 11:58:55 \N 1
125 jappepx Caenorhabditis japonica proteins aligned by WU-BlastX C.japonica proteins 1 1 104856 2012-03-20 11:59:04 104856 2012-03-20 11:59:04 \N 1
126 jgi_v1 Alignments to Ciona intestinalis gene models predicted by JGI on assembly version 1.0. JGI v1 prediction 1 0 \N \N \N \N \N 0
127 jgi_v2 Alignments to Ciona intestinalis gene models predicted by JGI on assembly version 2.0 ( http://genome.jgi-psf.org/Cioin2/Cioin2.home.html ) JGI v2 prediction 1 0 \N \N \N \N \N 0
128 knowngenedensity Known gene density as calculated by gene_density_calc.pl. Genes (density) 0 0 \N \N \N \N \N 1
129 kyotograil_2004 C. intestinalis gene models from the KYOTOGRAIL set, version 2004, aligned to the genome using Exonerate. Kyotograil 04 prediction 1 0 \N \N \N \N \N 0
130 kyotograil_2005 C. intestinalis gene models from the KYOTOGRAIL set, version 2005, aligned to the genome using Exonerate. Kyotograil 05 prediction 1 0 \N \N \N \N \N 0
131 lrg_import Data from LRG database LRG 0 1 97245 2013-02-19 10:11:23 97245 2013-02-19 10:11:23 33 0
132 macaque_cdna Macaque cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Macaque cDNAs 1 1 5132 2012-04-05 13:24:03 5132 2012-04-05 13:24:03 9 1
133 macaque_est Macaque 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Macaque ESTs 1 1 5132 2012-04-05 13:24:09 5132 2012-04-05 13:24:09 34 1
134 macaque_protein Macaque protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Macaque proteins 1 1 5132 2012-04-05 13:24:12 5132 2012-04-05 13:24:12 \N 1
135 macaque_refseq Macaque proteins from NCBI RefSeq used in the genebuild are aligned to the genome using GeneWise. Macaque proteins (RefSeq) 1 1 124435 2020-06-02 15:41:01 124435 2020-06-02 15:41:01 \N 1
136 mammal_protein Mammalian proteins from UniProtKB are aligned to the genome using GeneWise. Mammal proteins (UniProt) 1 0 5132 2012-06-19 10:56:10 5132 2012-06-19 10:56:10 \N 0
137 marker Markers, or sequence tagged sites (STS), from UniSTS are aligned to the genome using Electronic PCR (e-PCR). Marker 1 1 102717 2014-12-11 14:54:40 102717 2014-12-11 14:54:40 \N 1
138 marmoset_cdna Marmoset cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Marmoset cDNAs 1 1 5132 2012-04-05 13:24:35 5132 2012-04-05 13:24:35 9 1
139 marmoset_est Callithrix jacchus 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Marmoset ESTs 1 1 5132 2012-04-05 13:24:37 5132 2012-04-05 13:24:37 34 1
140 marmoset_protein Callithrix jacchus protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise. Marmoset proteins 1 1 5132 2012-04-05 13:24:40 5132 2012-04-05 13:24:40 \N 1
141 mature_peptide Feature imported from FlyBase. Mature Peptide 1 0 \N \N \N \N \N 0
142 medaka_5psage Medaka 5pSAGE data provided by the University of Tokyo and aligned to the genome using Exonerate (G. Slater et al., BMC Bioinformatics. 2005 6:31) Medaka 5' SAGE 1 1 \N \N \N \N \N 1
143 medaka_cdna Medaka cDNAs from NCBI RefSeq and EMBL are aligned to the genome aligned to the genome using GeneWise. Medaka cDNAs 1 1 5132 2012-04-05 13:24:50 5132 2012-04-05 13:24:50 9 1
144 medaka_est Medaka 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Medaka ESTs 1 1 5132 2012-04-05 13:24:53 5132 2012-04-05 13:24:53 34 1
145 medaka_genome_project Annotation provided by the Medaka Genome Project, viz. the University of Tokyo (http://medaka.utgenome.org/) and the National Institute of Genetics (http:// dolphin.lab.nig.ac.jp/medaka/). Medaka Genome Project 1 1 5132 2011-05-12 13:24:25 5132 2011-05-12 13:24:25 10 1
146 medaka_protein Medaka protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Medaka proteins 1 1 5132 2012-04-05 13:24:59 5132 2012-04-05 13:24:59 \N 1
147 medaka_transcriptcoalescer ESTs are mapped on the genome using Exonerate. Genes (including isoforms) are inferred using the gene-predicting module TranscriptCoalescer EST-based 1 1 97245 2012-11-16 10:25:04 97245 2012-11-16 10:25:04 53 1
148 mouse_cdna Mouse cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Mouse cDNAs 1 1 105967 2019-08-23 10:40:20 105967 2019-08-23 10:40:20 9 0
149 mouse_est Murine 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Mouse ESTs 1 1 105967 2019-08-24 10:15:15 105967 2019-08-24 10:15:15 34 0
150 mouse_protein Murine protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Mouse proteins 1 1 105967 2019-08-24 10:16:46 105967 2019-08-24 10:16:46 \N 1
151 mt_genbank_import Mitochondrial gene models imported from Genbank. MT genes (GenBank) 0 1 105967 2019-08-23 09:43:46 105967 2019-08-23 09:43:46 79 1
152 mus_one2one_human_orth Mouse ensembl transcripts that are one-to-one orthologues with human are aligned to the genome using Exonerate. Mouse Ensembl proteins 1 1 5132 2012-04-05 13:26:40 5132 2012-04-05 13:26:40 \N 0
153 ncoils Coiled-coil regions predicted by Ncoils. Coiled-coils (Ncoils) 1 1 105967 2019-05-01 11:07:30 105967 2019-05-01 11:07:30 1852 1
154 ncrna Non-coding RNAs (ncRNAs) predicted using sequences from RFAM and miRBase. See article. ncRNAs 0 1 124435 2020-12-04 13:29:18 124435 2020-12-04 13:29:18 79 1
155 ncrna_pseudogene ncRNA pseudogenes imported from the manual annotation produced by Sean Eddy group. ncRNA pseudogenes 1 0 5132 2012-04-05 13:26:50 5132 2012-04-05 13:26:50 \N 0
156 nembase_contig NemBase EST contigs nembasecontig 1 0 \N \N \N \N \N 0
157 operon Multi-gene feature imported from WormBase annotation. Operon 0 1 105967 2019-08-16 10:04:48 105967 2019-08-16 10:04:48 \N 1
158 opossum_cdna Opposum cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Opossum cDNAs 1 1 5132 2012-04-05 13:26:55 5132 2012-04-05 13:26:55 9 0
159 opossum_protein Opposum protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Opossum proteins 1 1 5132 2012-04-05 13:26:57 5132 2012-04-05 13:26:57 \N 1
160 orangutan_cdna Orangutan cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Orangutan cDNAs 1 1 105967 2019-08-24 10:36:31 105967 2019-08-24 10:36:31 9 0
161 orangutan_est Orangutan 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Orangutan ESTs 1 1 105967 2019-08-24 10:36:46 105967 2019-08-24 10:36:46 34 0
162 orangutan_protein Orangutan protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Orangutan proteins 1 1 5132 2012-04-05 13:27:06 5132 2012-04-05 13:27:06 \N 1
163 ost Caenorhabditis elegans OSTs of the Vidal Lab aligned to the genome using BLAT C.elegans OST 1 0 104856 2012-03-07 09:39:50 104856 2012-03-07 09:39:50 36 0
164 other_est For various species, 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Various ESTs 1 0 5132 2012-04-05 13:27:13 5132 2012-04-05 13:27:13 \N 0
165 other_protein For various species, proteins from UniProtKB are aligned to the genome with GeneWise. Other species proteins 1 1 105967 2019-08-23 08:26:33 105967 2019-08-23 08:26:33 4 1
166 otter Manual annotation from Havana Vega Havana 1 0 101214 2015-06-19 12:36:20 101214 2015-06-19 12:36:20 37 1
167 otter_external See the Vega website for details of the approaches used for the annotation of external Vega genes Vega External 1 0 101214 2015-06-19 12:36:20 101214 2015-06-19 12:36:20 44 1
168 oxford_fgu Gene predictions generated by Chris Ponting's group at the MRC-FGU, Oxford. MRC-FGU 1 1 \N \N \N \N 49 1
169 percentagerepeat Percentage of repetitive elements for top level sequences (such as chromosomes, scaffolds, etc.) Repeats (percent) 0 1 \N \N \N \N \N 1
170 percentgc Percentage of G/C bases in the sequence. GC content 0 1 \N \N \N \N \N 1
171 pfam Protein domains and motifs from the Pfam database. Pfam 1 1 128249 2022-10-11 09:50:42 128249 2022-10-11 09:50:42 15 1
172 pfscan Protein domains and motifs from the PROSITE profiles database. PROSITE profiles 1 1 105967 2019-05-01 11:06:47 105967 2019-05-01 11:06:47 15 1
173 pig_cdna Pig cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Pig cDNAs 1 1 105967 2019-08-23 10:36:17 105967 2019-08-23 10:36:17 9 0
174 pig_est Pig 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Pig ESTs 1 1 101214 2017-07-12 10:23:49 101214 2017-07-12 10:23:49 34 0
175 pig_protein Pig protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Pig proteins 1 1 101214 2017-07-12 10:23:49 101214 2017-07-12 10:23:49 \N 1
176 pirsf Protein domains and motifs from the PIR (Protein Information Resource) Superfamily database. PIRSF 1 1 105967 2019-05-01 11:08:11 105967 2019-05-01 11:08:11 15 1
177 platypus_454_cdna Platypus reads from 454 sequencing are aligned to the genome using Exonerate. Platypus sequence reads (454) 0 1 105967 2019-08-24 10:31:47 105967 2019-08-24 10:31:47 9 0
178 platypus_cdna Platypus cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Platypus cDNAs 1 1 105967 2019-08-24 10:31:27 105967 2019-08-24 10:31:27 9 0
179 platypus_est Platypus 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Platypus ESTs 1 1 5132 2012-04-05 13:30:28 5132 2012-04-05 13:30:28 34 1
180 platypus_olfactory_receptors Manually curated olfactory receptor sequences from Tsviya Olender Olfactory receptors 1 1 5132 2012-04-05 13:30:38 5132 2012-04-05 13:30:38 55 1
181 platypus_olfactory_receptor_cdna Manually curated olfactory receptor sequences from Tsviya Olender Olfactory receptors 1 1 5132 2012-04-05 13:30:41 5132 2012-04-05 13:30:41 5 1
182 platypus_protein Platypus protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Platypus proteins 1 1 5132 2012-04-05 13:30:46 5132 2012-04-05 13:30:46 \N 1
183 polya_site PolyA site identified during manual annotation PolyA Site 0 1 161 2012-10-04 09:47:11 161 2012-10-04 09:47:11 109 1
184 ppapepp Pristionchus pacificus proteins aligned by WU-BlastP P.pacificus proteins 1 1 104856 2012-03-20 11:59:27 104856 2012-03-20 11:59:27 \N 1
185 ppapepx Pristionchus pacificus proteins aligned by WU-BlastX P.pacificus proteins 1 1 104856 2012-03-20 11:59:37 104856 2012-03-20 11:59:37 \N 1
186 prints Protein fingerprints (groups of conserved motifs) from the PRINTS database. Prints 1 1 105967 2019-05-01 11:08:36 105967 2019-05-01 11:08:36 15 1
187 protein_binding_site Feature imported from FlyBase. Protein Binding Site 1 0 \N \N \N \N \N 0
188 pseudogene Pseudogenes are identified from the Ensembl gene set (predicted by GeneWise/Exonerate) on the basis of frameshifted introns (introns of less than 10bp) and intron repeat content (introns of more than 80% repeat). See article for more. Pseudogene 1 1 124435 2020-06-02 15:40:29 124435 2020-06-02 15:40:29 74 1
189 qtl Quantitative Trait Loci (QTL) features. QTL 1 0 \N \N \N \N \N 1
190 rabbit_cdna Rabbit cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Rabbit cDNAs 1 1 105967 2019-08-23 10:39:07 105967 2019-08-23 10:39:07 9 0
191 rabbit_est Oryctolagus cuniculus 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Rabbit ESTs 1 1 105967 2019-08-23 10:39:21 105967 2019-08-23 10:39:21 34 0
192 rabbit_protein Rabbit protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Rabbit proteins 1 1 5132 2012-04-05 13:31:29 5132 2012-04-05 13:31:29 \N 1
193 rat_cdna Rattus cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Rat cDNAs 1 1 105967 2019-08-23 10:36:32 105967 2019-08-23 10:36:32 9 0
194 rat_cdna2genome Rattus norvegicus cDNAs from NCBI RefSeq and EMBL are aligned to the genome using Exonerate cdna2genome model. Rat cDNAs (cdna2genome) 1 1 5132 2012-04-05 13:31:46 5132 2012-04-05 13:31:46 5 0
195 rat_est Rattus norvegicus 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Rat ESTs 1 1 105967 2019-08-23 10:36:43 105967 2019-08-23 10:36:43 34 0
196 refseq_human Human cDNAs from NCBI RefSeq are aligned to the genome using GeneWise. Human cDNAs (RefSeq) 1 0 5132 2012-04-05 13:32:05 5132 2012-04-05 13:32:05 \N 0
198 regulatory_region Feature imported from FlyBase. Regulatory Region 1 0 \N \N \N \N \N 0
199 remaneip Caenorhabditis remanei proteins aligned by WU-BlastP C.remanei proteins 1 0 104856 2012-03-20 11:57:58 104856 2012-03-20 11:57:58 \N 0
200 remaneix Caenorhabditis remanei proteins aligned by WU-BlastX C.remanei proteins 1 0 104856 2012-03-20 11:58:37 104856 2012-03-20 11:58:37 \N 1
201 repeatmask RepeatMasker is used to find repeats and low-complexity sequences. This track usually shows repeats alone (not low-complexity sequences). Repeats 0 1 105967 2019-08-16 10:03:54 105967 2019-08-16 10:03:54 \N 1
202 rescue_fragment Feature (Fly) imported from FlyBase. Rescue Fragment 1 0 \N \N \N \N \N 0
203 rfamblast Positions of ncRNAs (non-coding RNAs) from the Rfam database are shown. Initial BLASTN hits of genomic sequence to RFAM ncRNAs are clustered and filtered by E value. These hits are supporting evidence for ncRNA genes. RFAM ncRNAs 1 1 101214 2019-10-28 16:09:59 101214 2019-10-28 16:09:59 \N 0
204 rna-seq_exon_supporting_feat Supporting feature for exons of RNA-Seq gene model RNA-Seq exon supp feat 1 1 \N \N \N \N \N 0
205 rnai Aligned probes from RNA interference experiments RNAi 1 0 104856 2012-03-20 13:57:21 104856 2012-03-20 13:57:21 \N 0
206 rodent_protein Rodent protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Rodent proteins 1 1 5132 2012-04-05 13:33:52 5132 2012-04-05 13:33:52 \N 1
207 rrna ribosomal RNA genes rRNA 1 0 \N \N \N \N \N 0
208 savignyi_est Ciona savignyi 'Expressed Sequence Tags' (ESTs) were aligned to corrected cDNA sequences from the Kyoto-EST-set using Exonerate. C.savignyi ESTs 1 1 105967 2019-08-24 09:53:46 105967 2019-08-24 09:53:46 34 0
209 scanprosite Protein domains and motifs from the PROSITE patterns database. PROSITE patterns 1 1 105967 2019-05-01 11:09:02 105967 2019-05-01 11:09:02 15 1
210 seg Low complexity peptide sequences identified by Seg. Low complexity (Seg) 0 1 105967 2019-05-01 11:09:57 105967 2019-05-01 11:09:57 1852 1
211 seleno_genebuilder Seleno protein cDNAs aligned using Exonerate with selenocysteines added based on EMBL annotation. Selenoprotein cDNAs 1 0 5132 2012-04-05 13:34:26 5132 2012-04-05 13:34:26 \N 0
212 sequence_variant Feature imported from FlyBase. Sequence Variant 1 0 \N \N \N \N \N 0
213 sgd Annotation imported from SGD SGD 0 1 105967 2019-08-16 10:14:59 105967 2019-08-16 10:14:59 43 1
214 sheep_bac_ends Sheep Bacterial Artificial Chromosome (end sequences) are aligned to the genome sequence using Exonerate keeping the three best alignments. Sheep BAC ends 1 1 101214 2014-09-03 16:23:24 101214 2014-09-03 16:23:24 \N 1
215 signalp Signal peptide cleavage sites predicted by SignalP. Cleavage site (Signalp) 1 1 105967 2019-05-01 11:11:12 105967 2019-05-01 11:11:12 1852 1
216 singapore_est Expressed Sequence Tag (EST)-based gene prediction provided by B. Kumarasamy and E. Stupka. Singapore EST-based 1 1 5132 2011-05-12 13:24:25 5132 2011-05-12 13:24:25 56 1
217 singapore_protein Protein-based gene-prediction Singapore 1 1 5132 2011-05-12 13:24:25 5132 2011-05-12 13:24:25 59 1
218 slimswissprotp UniProt reviewed proteins aligned by WU-BlastP UniProt/Swiss-Prot 1 1 5132 2012-04-05 13:35:28 5132 2012-04-05 13:35:28 \N 1
219 slimswissprotx UniProt reviewed proteins aligned by WU-BlastX UniProt/Swiss-Prot 1 1 5132 2012-04-05 13:35:24 5132 2012-04-05 13:35:24 \N 1
220 slimtremblp UniProt unreviewed proteins aligned by WU-BlastP UniProt/TrEMBL 1 0 104856 2012-03-23 16:22:26 104856 2012-03-23 16:22:26 \N 0
221 slimtremblx UniProt unreviewed proteins aligned by WU-BlastX UniProt/TrEMBL 1 0 104856 2012-03-23 16:22:36 104856 2012-03-23 16:22:36 \N 1
222 smart Protein domains and motifs from the SMART database. SMART 1 1 105967 2019-05-01 11:11:30 105967 2019-05-01 11:11:30 15 1
223 snap Ab initio gene prediction by SNAP, on genomic sequence alone. SNAP predictions 0 1 105967 2019-08-16 10:02:28 105967 2019-08-16 10:02:28 \N 1
224 snlrna Small nucleolar like RNA genes snlRNAs 1 0 5132 2012-04-05 13:35:52 5132 2012-04-05 13:35:52 \N 0
225 snorna Small nucleolar RNA genes snoRNAs 1 0 5132 2012-04-05 13:36:01 5132 2012-04-05 13:36:01 \N 0
226 snpdensity Density of single nucleotide polymorphisms (SNPs), calculated by dividing the chromosome into 150 "bins" and counting the SNPs in each. (For very short chromosomes, e.g. MT, some SNPs contribute to multiple bins.) SNP Density 0 1 105967 2019-05-01 10:59:43 105967 2019-05-01 10:59:43 \N 1
227 snrna Small nuclear RNA genes snRNAs 1 0 5132 2012-04-05 13:36:11 5132 2012-04-05 13:36:11 \N 0
228 stickleback_cdna Gasterosteus aculeatus cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Stickleback cDNAs 1 1 105967 2019-08-24 10:03:00 105967 2019-08-24 10:03:00 9 0
229 stickleback_est Gasterosteus aculeatus 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Stickleback ESTs 1 1 105967 2019-08-24 10:03:08 105967 2019-08-24 10:03:08 34 0
230 stickleback_protein Gasterosteus aculeatus protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Stickleback proteins 1 1 5132 2012-04-05 13:37:09 5132 2012-04-05 13:37:09 \N 1
231 superfamily Protein domains and motifs from the SUPERFAMILY database. Superfamily 1 1 105967 2019-05-01 11:12:05 105967 2019-05-01 11:12:05 15 1
232 supp_repeatmask Interspersed repeats and low complexity sequence identified by RepeatMasker using a supplemental repeat database specific to the species. Supp. Repeats (Recon) 1 1 \N \N \N \N \N 1
233 tetraodon_cdna Tetraodon cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Tetraodon cDNAs 1 1 105967 2019-08-24 10:45:16 105967 2019-08-24 10:45:16 31 0
234 tetraodon_est Tetraodon 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Tetraodon ESTs 1 1 105967 2019-08-24 10:45:31 105967 2019-08-24 10:45:31 34 0
235 tetraodon_protein Tetraodon protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Tetraodon proteins 1 1 5132 2012-04-05 13:37:42 5132 2012-04-05 13:37:42 \N 1
236 tigrfam Protein domains and motifs from the TIGRFAM database. TIGRFAM 1 1 105967 2019-05-01 11:12:26 105967 2019-05-01 11:12:26 15 1
237 tmhmm Transmembrane helices predicted by TMHMM. Transmembrane helices 1 1 105967 2019-05-01 11:12:57 105967 2019-05-01 11:12:57 1852 1
238 transposable_element Feature imported from FlyBase. TE 1 0 \N \N \N \N \N 0
239 trf Tandem Repeats Finder locates adjacent copies of a pattern of nucleotides. Tandem repeats (TRF) 0 1 105967 2019-05-02 12:24:49 105967 2019-05-02 12:24:49 \N 1
240 trna Transfer RNA genes tRNAs 1 0 5132 2012-04-05 13:38:25 5132 2012-04-05 13:38:25 \N 0
241 trnascan Prediction of tRNAs in genomic sequence is through tRNAscan-SE. See article. tRNAs 0 1 105967 2019-08-22 16:06:40 105967 2019-08-22 16:06:40 \N 1
242 uncharacterized_change_in_nucleotide_seq Feature imported from FlyBase. Nuc. seq. change 1 0 \N \N \N \N \N 0
243 unigene Positions of UniGene sequences along the genome. These are determined using TBLASTN of Genscan predictions against UniGene sequences. EST cluster (Unigene) 1 1 124435 2020-09-23 11:47:16 124435 2020-09-23 11:47:16 9 1
244 uniprot Proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted peptides to UniProtKB proteins. Proteins from UniProtKB 1 1 5132 2020-04-07 11:10:19 5132 2020-04-07 11:10:19 \N 1
245 uniprot_mammal Mammalian proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted (mammalian) peptides to UniProtKB proteins. Proteins (mammal) from UniProt 1 1 101214 2020-01-02 15:40:59 101214 2020-01-02 15:40:59 \N 1
246 uniprot_non_mammal Non-mammal proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted (non-mammalian) peptides to UniProtKB proteins. Proteins (non-mammal vertebrate) from UniProt 1 1 101214 2020-01-02 15:40:38 101214 2020-01-02 15:40:38 \N 1
247 uniprot_non_vertebrate Non-vertebrate proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted (non-vertebrate) peptides to UniProtKB proteins. Proteins (non-vertebrate) from UniProt 1 1 105967 2020-04-07 09:53:31 105967 2020-04-07 09:53:31 \N 1
248 uniprot_sw Proteins from the UniProtKB Swiss-Prot database, aligned to the genome by Havana. UniProt proteins 1 0 5132 2012-04-05 13:39:13 5132 2012-04-05 13:39:13 \N 1
249 uniprot_tr Proteins from the UniProtKB TrEMBL database, aligned to the genome by Havana. TrEMBL proteins 1 0 5132 2012-04-05 13:39:27 5132 2012-04-05 13:39:27 \N 1
250 uniprot_vertebrate Vertebrate proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted (vertebrate) peptides to UniProtKB proteins. Vertebrate UniProt proteins 1 1 101214 2020-01-02 15:41:09 101214 2020-01-02 15:41:09 \N 1
251 vertrna Positions of vertebrate mRNAs along the genome. mRNAs are from the European Nucleotide Archive database. Initial alignments are performed using TBLASTN of Genscan-predicted peptides against the European Nucleotide Archive mRNAs. Vertebrate cDNAs (ENA) 1 1 105967 2019-08-22 16:05:25 105967 2019-08-22 16:05:25 5 1
252 vertrna_other Genomic positions of non-coding vertebrate mRNAs, annotated by the Anacode team at the Wellcome Trust Sanger Institute and used in Havana manual curation as supporting evidence for exons. Each repeat-masked clone (not an entire chromosome) is searched against non-coding RNA molecules of type "Other RNA" from the European Nucleotide Archive database using NCBI BLAST. Since each clone is searched, there will be edge effects where clones overlap in the chromosome assembly. Vertebrate non-coding cDNAs (ENA) 1 0 5132 2012-04-05 13:40:04 5132 2012-04-05 13:40:04 \N 0
253 washu_contig Washington University Nematode clusters aligned by BLAT Washu. contig 1 0 104856 2012-03-07 09:40:04 104856 2012-03-07 09:40:04 \N 0
254 human_projected_protein Alignment to a human Ensembl protein inferred by projecting through a BLASTZ DNA alignment to the human genome Human projected proteins 1 1 5132 2012-04-05 13:22:40 5132 2012-04-05 13:22:40 \N 1
255 wormbase Protein-coding model imported from WormBase Coding 0 1 105967 2019-08-16 10:04:21 105967 2019-08-16 10:04:21 103 1
256 wormpepp Caenorhabditis elegans proteins aligned by WU-BlastP C.elegans proteins 1 1 104856 2012-03-23 16:23:07 104856 2012-03-23 16:23:07 \N 1
257 wormpepx Caenorhabditis elegans proteins aligned by WU-BlastX C.elegans proteins 1 1 104856 2012-03-23 16:23:18 104856 2012-03-23 16:23:18 \N 1
258 xlaevis_cdna Xenopus laevis cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. X.laevis cDNAs 1 0 5132 2012-04-05 13:40:53 5132 2012-04-05 13:40:53 9 0
259 xlaevis_est Xenopus laevis 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. X.laevis ESTs 1 0 5132 2012-04-05 13:41:02 5132 2012-04-05 13:41:02 34 1
260 xrefcoordinatemapping xrefcoordinatemapping xrefcoordinatemapping 0 1 \N \N \N \N \N 0
261 xrefexoneratedna Sequences from various databases are matched to Ensembl transcripts using Exonerate. These are external references, or 'Xrefs'. DNA match 0 1 \N \N \N \N \N 0
262 xrefexonerateprotein match Protein 0 1 \N \N \N \N \N 0
263 xtrop_cdna Xenopus tropicalis cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. X.tropicalis cDNAs 1 1 5132 2012-04-05 13:41:14 5132 2012-04-05 13:41:14 9 1
264 xtrop_cluster Xenopus laevis 'Expressed Sequence Tag Clusters' (ESTs) from Gurdon Institute Xenopus tropicalis Full-Length Database are aligned to the genome using Exonerate. X.laevis EST cluster 1 0 5132 2012-04-05 13:41:23 5132 2012-04-05 13:41:23 34 1
265 xtrop_est Xenopus tropicalis 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. X.tropicalis ESTs 1 1 5132 2012-04-05 13:41:29 5132 2012-04-05 13:41:29 34 1
266 xtrop_protein Xenopus tropicalis protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. X.tropicalis proteins 1 1 5132 2012-04-05 13:41:36 5132 2012-04-05 13:41:36 \N 1
267 yeastp S. cerevisiae proteins aligned by WU-BlastP Yeast proteins 1 1 104856 2012-03-23 16:20:50 104856 2012-03-23 16:20:50 \N 1
268 yeastx S. cerevisiae proteins aligned by WU-BlastX Yeast proteins 1 1 104856 2012-03-23 16:20:37 104856 2012-03-23 16:20:37 \N 1
269 zebra_finch_cdna Taeniopygia guttata cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Zebra finch cDNAs 1 1 105967 2019-08-24 10:43:12 105967 2019-08-24 10:43:12 9 0
270 zebra_finch_est Taeniopygia guttata 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Zebra finch ESTs 1 1 105967 2019-08-24 10:43:03 105967 2019-08-24 10:43:03 34 0
271 zebra_finch_protein Taeniopygia guttata protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Zebra finch proteins 1 1 5132 2012-04-05 13:42:10 5132 2012-04-05 13:42:10 \N 0
272 zfish_14dpf_intron Spliced RNASeq read support for intron from 14 days post fertilization embryos 14dpf intron 0 1 \N \N \N \N \N 1
273 zfish_1dpf_intron Spliced RNASeq read support for intron from 1 day post fertilization embryos 1dpf intron 0 1 \N \N \N \N \N 1
274 zfish_2cells_intron Spliced RNASeq read support for intron from 2 cell stage 2 cell intron 0 1 \N \N \N \N \N 1
275 zfish_2dpf_intron Spliced RNASeq read support for intron from 2 days post fertilization embryos 2dpf intron 0 1 \N \N \N \N \N 1
276 zfish_3dpf_intron Spliced RNASeq read support for intron from 3 days post fertilization embryos 3dpf intron 0 1 \N \N \N \N \N 1
277 zfish_5dpf_intron Spliced RNASeq read support for intron from 5 days post fertilization embryos 5dpf intron 0 1 \N \N \N \N \N 1
278 zfish_6hpf_intron Spliced RNASeq read support for intron from 6 hours post fertilization embryos 6hpf intron 0 1 \N \N \N \N \N 1
279 zfish_cdna Danio rerio cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Zebrafish cDNAs 1 1 105967 2019-08-23 10:35:41 105967 2019-08-23 10:35:41 9 0
280 zfish_est Danio rerio 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Zebrafish ESTs 1 1 105967 2019-08-24 09:58:40 105967 2019-08-24 09:58:40 34 0
281 zfish_female_body_intron Spliced RNASeq read support for intron from female body Female body intron 0 1 \N \N \N \N \N 1
282 zfish_female_head_intron Spliced RNASeq read support for intron from female head Female head intron 0 1 \N \N \N \N \N 1
283 zfish_male_body_intron Spliced RNASeq read support for intron from male body Male body intron 0 1 \N \N \N \N \N 1
284 zfish_male_head_intron Spliced RNASeq read support for intron from male head Male head intron 0 1 \N \N \N \N \N 1
285 zfish_ovary_intron Spliced RNASeq read support for intron from ovary Ovary intron 0 1 \N \N \N \N \N 1
286 zfish_protein Zebrafish protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Zebrafish proteins 1 1 5132 2012-04-05 13:42:47 5132 2012-04-05 13:42:47 \N 1
287 zfish_rnaseq Annotation generated using only Zebrafish RNASeq data. Pooled RNASeq 0 1 101214 2013-06-19 16:12:10 101214 2013-06-19 16:12:10 \N 1
288 est2genome_fish Alignment of zebrafish ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Zebrafish EST (EST2genome) 1 0 \N \N \N \N 34 1
289 vertrna_havana Positions of vertebrate mRNAs along the genome. mRNAs are from the European Nucleotide Archive database. Initial alignments are performed using TBLASTN of Genscan-predicted peptides against the European Nucleotide Archive mRNAs. Vertebrate cDNAs (ENA) 1 1 5132 2012-04-05 13:39:56 5132 2012-04-05 13:39:56 9 0
290 refseq_zebrafish Zebrafish cDNAs from NCBI RefSeq are aligned to the genome using GeneWise. Zebrafish cDNAs (RefSeq) 1 0 5132 2012-04-05 13:32:59 5132 2012-04-05 13:32:59 \N 0
291 zfish_3dpf RNASeq read support for exon from 3 days post fertilization embryos 3dpf exon 0 1 \N \N \N \N \N 1
292 zfish_2dpf RNASeq read support for exon from 2 days post fertilization embryos 2dpf exon 0 1 \N \N \N \N \N 1
293 zfish_5dpf RNASeq read support for exon from 5 days post fertilization embryos 5dpf exon 0 1 \N \N \N \N \N 1
294 zfish_male_body RNASeq read support for exon from male body Male body exon 0 1 \N \N \N \N \N 1
295 zfish_female_body RNASeq read support for exon from female body Female body exon 0 1 \N \N \N \N \N 1
296 zfish_ovary RNASeq read support for exon from ovary Ovary exon 0 1 \N \N \N \N \N 1
297 zfish_female_head RNASeq read support for exon from female head Female head exon 0 1 \N \N \N \N \N 1
298 zfish_1dpf RNASeq read support for exon from 1 day post fertilization embryos 1dpf exon 0 1 \N \N \N \N \N 1
299 zfish_2cells RNASeq read support for exon from 2 cells 2 cells exon 0 1 \N \N \N \N \N 1
300 zfish_6hpf RNASeq read support for exon from 6 hours post fertilization embyos 6hpf exon 0 1 \N \N \N \N \N 1
301 zfish_brain RNASeq read support for exon from brain Brain exon 0 1 \N \N \N \N \N 0
302 zfish_swimbladder RNASeq read support for exon from swimbladder Swimbladder exon 0 1 \N \N \N \N \N 0
303 zfish_headkidney RNASeq read support for exon from head kidney Head kidney exon 0 1 \N \N \N \N \N 0
304 zfish_heart RNASeq read support for exon from heart Heart exon 0 1 \N \N \N \N \N 0
305 human_ig_protein Homo sapiens immunoglobulin (Ig) and T-cell receptor (TcR) proteins from the IMGT database are aligned to the genome using Exonerate. IG and TcR human proteins 1 0 5132 2012-04-05 13:22:12 5132 2012-04-05 13:22:12 \N 0
306 human_ig_cdna Homo sapiens immunoglobulin (Ig) and T-cell receptor (TcR) cDNAs from the IMGT database are aligned to the genome using Exonerate. IG and TcR human cDNAs 1 0 5132 2012-04-05 13:22:17 5132 2012-04-05 13:22:17 \N 0
307 ensembl_lincrna Long intergenic non-coding RNAs (lincRNAs) were annotated by the Ensembl lincRNA annotation pipeline. Ensembl lincRNA 0 1 107111 2015-05-29 13:34:37 107111 2015-05-29 13:34:37 79 1
308 ensembl_havana_lincrna Long intergenic non-coding RNAs (lincRNAs) containing both Ensembl lincRNA transcripts annotated by the Ensembl lincRNA annotation pipeline and non-coding transcripts from Havana manual curation. Ensembl/Havana merge lincRNA 0 1 161 2019-06-27 08:45:41 161 2019-06-27 08:45:41 1211 1
8414 astyanax_mexicanus_female_bones_rnaseq_gene Annotation generated from female bones RNA-seq data female bones RNA-seq gene models 1 1 \N 2019-06-28 14:05:00 \N 2019-06-28 14:05:00 5958 1
309 turkey_est Meleagris gallopavo 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Turkey ESTs 1 1 105967 2019-08-23 10:41:21 105967 2019-08-23 10:41:21 34 0
310 turkey_cdna Turkey cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Turkey cDNAs 1 1 105967 2019-08-23 10:41:07 105967 2019-08-23 10:41:07 9 0
311 mouse_cdna2genome Mus musculus cDNAs from NCBI RefSeq and the European Nucleotide Archive are aligned to the genome using Exonerate cdna2genome model. Mouse cDNAs (cdna2genome) 1 1 5132 2012-04-05 13:25:52 5132 2012-04-05 13:25:52 5 0
312 mouse_ig_protein Mus musculus immunoglobulin (Ig) and T-cell receptor (TcR) proteins from the IMGT database are aligned to the genome using Exonerate. IG and TcR mouse proteins 1 1 5132 2012-04-05 13:26:16 5132 2012-04-05 13:26:16 \N 0
313 mouse_ig_cdna Mus musculus immunoglobulin (Ig) and T-cell receptor (TcR) cDNAs from the IMGT database are aligned to the genome using Exonerate. IG and TcR mouse cDNAs 1 0 5132 2012-04-05 13:26:06 5132 2012-04-05 13:26:06 9 0
314 zfish_14dpf RNASeq read support for exon from 14 days post fertilization embryos 14dpf exon 0 1 \N \N \N \N \N 1
315 expression_pattern This sequence has been shown to be expressed in situ hybridisation experiments. The complete expression data collection is hosted by ZFIN Expression pattern 1 1 101214 2015-06-19 12:36:20 101214 2015-06-19 12:36:20 \N 1
316 human_adipose_daf Spliced RNASeq read support for intron from Human adipose total RNA, lot 05060581, caucasian female, throat cancer, Illumina Human Bodymap 2.0 Data Adipose intron-spanning reads 0 1 101214 2020-07-16 13:57:15 101214 2020-07-16 13:57:15 927 1
317 human_adrenal_daf Spliced RNASeq read support for intron from Human adrenal total RNA, lot 0812003, caucasian male, cerebral vascular accident, Illumina Human Bodymap 2.0 Data Adrenal intron-spanning reads 0 1 101214 2020-07-16 14:05:08 101214 2020-07-16 14:05:08 175 1
318 human_blood_daf Spliced RNASeq read support for intron from Human white blood cell, caucasian male, healthy, Illumina Human Bodymap 2.0 Data Blood intron-spanning reads 0 1 101214 2020-07-16 13:57:08 101214 2020-07-16 13:57:08 176 1
319 human_brain_daf Spliced RNASeq read support for intron from Human brain total RNA, lot 03070051, caucasian female, copd, Illumina Human Bodymap 2.0 Data Brain intron-spanning reads 0 1 101214 2020-07-16 13:57:00 101214 2020-07-16 13:57:00 174 1
320 human_breast_daf Spliced RNASeq read support for intron from Human breast total RNA, lot 04060013, caucasian female, mammoplasty surgery, Illumina Human Bodymap 2.0 Data Breast intron-spanning reads 0 1 101214 2020-07-16 13:56:51 101214 2020-07-16 13:56:51 173 1
321 human_colon_daf Spliced RNASeq read support for intron from Human colon total RNA, lot 05060063, caucasian female, breast cancer with /mets to lungs and lymph nodes, Illumina Human Bodymap 2.0 Data Colon intron-spanning reads 0 1 101214 2020-07-16 13:56:43 101214 2020-07-16 13:56:43 177 1
322 human_heart_daf Spliced RNASeq read support for intron from Human heart total RNA, lot 07040023, caucasian male, cerebral vascular accident, Illumina Human Bodymap 2.0 Data Heart intron-spanning reads 0 1 101214 2020-07-16 13:56:33 101214 2020-07-16 13:56:33 178 1
323 human_kidney_daf Spliced RNASeq read support for intron from Human kidney total RNA, lot 0908002, caucasian female, sub-arachnoid hemorrhage, Illumina Human Bodymap 2.0 Data Kidney intron-spanning reads 0 1 101214 2020-07-16 13:56:24 101214 2020-07-16 13:56:24 223 1
324 human_lung_daf Spliced RNASeq read support for intron from Human lung total RNA, lot 0904002, caucasian male, myocardial infraction, Illumina Human Bodymap 2.0 Data Lung intron-spanning reads 0 1 101214 2020-07-16 13:56:14 101214 2020-07-16 13:56:14 180 1
325 human_lymph_daf Spliced RNASeq read support for intron from Human lymph node total RNA, lot 026P010305032B, caucasian female, organic brain syndrome, Illumina Human Bodymap 2.0 Data Lymph intron-spanning reads 0 1 101214 2020-07-16 13:56:06 101214 2020-07-16 13:56:06 181 1
326 human_ovary_daf Spliced RNASeq read support for intron from Human ovary total RNA, lot 0812002, african american female, intracranial hemorrhage, Illumina Human Bodymap 2.0 Data Ovary intron-spanning reads 0 1 101214 2020-07-16 13:55:57 101214 2020-07-16 13:55:57 182 1
327 human_prostate_daf Spliced RNASeq read support for intron from Human prostate total RNA, lot 0906002, caucasian male, lung cancer w/mets, Illumina Human Bodymap 2.0 Data Prostate intron-spanning reads 0 1 101214 2020-07-16 13:55:49 101214 2020-07-16 13:55:49 185 1
328 human_skeletal_muscle_daf Spliced RNASeq read support for intron from Human skeletal muscle total RNA, lot 046P021205086A, caucasian male, cardio pulmonary arrest, Illumina Human Bodymap 2.0 Data Skeletal muscle intron-spanning reads 0 1 101214 2020-07-16 13:55:41 101214 2020-07-16 13:55:41 186 1
329 human_testes_daf Spliced RNASeq read support for intron from Human testes total RNA, lot 05060392, caucasian male, anoxic encephalopathy, Illumina Human Bodymap 2.0 Data Testes intron-spanning reads 0 1 101214 2020-07-16 13:55:33 101214 2020-07-16 13:55:33 187 1
330 human_thyroid_daf Spliced RNASeq read support for intron from Human thyroid total RNA, lot 0908003, caucasian female, cerebral vascular accident, Illumina Human Bodymap 2.0 Data Thyroid intron-spanning reads 0 1 101214 2020-07-16 13:55:25 101214 2020-07-16 13:55:25 188 1
331 human_liver_daf Spliced RNASeq read support for intron from Human liver total RNA, lot 040000124, caucasian male, suicide/36 foot fall, Illumina Human Bodymap 2.0 Data Liver intron-spanning reads 0 1 101214 2020-07-16 13:55:17 101214 2020-07-16 13:55:17 179 1
332 human_pooled_rnaseq Models built using Human pooled data, Illumina Human Bodymap 2.0 Pooled RNASeq 0 1 5132 2012-11-27 10:13:53 5132 2012-11-27 10:13:53 198 1
333 human_adrenal_rnaseq Models built using Human adrenal total RNA, lot 0812003, caucasian male, cerebral vascular accident, Illumina Human Bodymap 2.0 Data Adrenal RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 189 1
334 human_blood_rnaseq Models built using Human white blood cell, caucasian male, healthy, Illumina Human Bodymap 2.0 Data Blood RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 192 1
335 human_brain_rnaseq Models built using Human brain total RNA, lot 03070051, caucasian female, copd, Illumina Human Bodymap 2.0 Data Brain RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 191 1
336 human_breast_rnaseq Models built using Human breast total RNA, lot 04060013, caucasian female, mammoplasty surgery, Illumina Human Bodymap 2.0 Data Breast RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 190 1
337 human_colon_rnaseq Models built using Human colon total RNA, lot 05060063, caucasian female, breast cancer with /mets to lungs and lymph nodes, Illumina Human Bodymap 2.0 Data Colon RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 193 1
338 human_heart_rnaseq Models built using Human heart total RNA, lot 07040023, caucasian male, cerebral vascular accident, Illumina Human Bodymap 2.0 Data Heart RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 194 1
339 human_kidney_rnaseq Models built using Human kidney total RNA, lot 0908002, caucasian female, sub-arachnoid hemorrhage, Illumina Human Bodymap 2.0 Data Kidney RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 204 1
340 human_lung_rnaseq Models built using Human lung total RNA, lot 0904002, caucasian male, myocardial infraction, Illumina Human Bodymap 2.0 Data Lung RNAseq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 196 1
341 human_lymph_rnaseq Models built using Human lymph node total RNA, lot 026P010305032B, caucasian female, organic brain syndrome, Illumina Human Bodymap 2.0 Data Lymph RNAseq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 203 1
342 human_ovary_rnaseq Models built using Human ovary total RNA, lot 0812002, african american female, intracranial hemorrhage, Illumina Human Bodymap 2.0 Data Ovary RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 199 1
343 human_prostate_rnaseq Models built using Human prostate total RNA, lot 0906002, caucasian male, lung cancer w/mets, Illumina Human Bodymap 2.0 Data Prostate RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 200 1
344 human_skeletal_muscle_rnaseq Models built using Human skeletal muscle total RNA, lot 046P021205086A, caucasian male, cardio pulmonary arrest, Illumina Human Bodymap 2.0 Data Skeletal muscle RNASeq 0 1 5132 2012-11-27 10:04:29 5132 2012-11-27 10:04:29 201 1
345 human_testes_rnaseq Models built using Human testes total RNA, lot 05060392, caucasian male, anoxic encephalopathy, Illumina Human Bodymap 2.0 Data Testes RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 202 1
346 human_thyroid_rnaseq Models built using Human thyroid total RNA, lot 0908003, caucasian female, cerebral vascular accident, Illumina Human Bodymap 2.0 Data Thyroid RNASeq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 205 1
347 human_liver_rnaseq Models built using Human liver total RNA, lot 040000124, caucasian male, suicide/36 foot fall, Illumina Human Bodymap 2.0 Data Liver RNAseq 0 1 97245 2012-11-27 09:33:04 97245 2012-11-27 09:33:04 195 1
348 gibbon_repeatmask RepeatMasker is used to find repeats and low-complexity sequences using a gibbon repeat library. This track usually shows repeats alone (not low-complexity sequences). Repeats (gibbon) 1 1 5132 2012-04-04 21:46:05 5132 2012-04-04 21:46:05 \N 1
349 mammal_repeatmask RepeatMasker is used to find repeats and low-complexity sequences using a mammal repeat library. This track usually shows repeats alone (not low-complexity sequences). Repeats (Mammal) 1 1 \N \N \N \N \N 1
350 gibbon_protein Gibbon protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Gibbon proteins 1 1 5132 2012-04-05 13:17:10 5132 2012-04-05 13:17:10 \N 1
351 gibbon_cdna Gibbon cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Gibbon cDNAs 1 1 5132 2012-04-05 13:17:05 5132 2012-04-05 13:17:05 9 0
353 refseq_human_havana Human cDNAs from NCBI RefSeq are aligned to the genome using GeneWise. Human cDNAs (RefSeq) 0 1 5132 2012-04-05 13:32:33 5132 2012-04-05 13:32:33 9 0
354 est2genome_human_havana Alignment of human ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Human EST (EST2genome) 1 1 \N \N \N \N 34 0
355 vertrna_other_havana Genomic positions of non-coding vertebrate mRNAs, annotated by the Anacode team at the Wellcome Trust Sanger Institute and used in Havana manual curation as supporting evidence for exons. Each repeat-masked clone (not an entire chromosome) is searched against non-coding RNA molecules of type "Other RNA" from the European Nucleotide Archive database using NCBI BLAST. Since each clone is searched, there will be edge effects where clones overlap in the chromosome assembly. Vertebrate non-coding cDNAs (ENA) 1 1 5132 2012-04-05 13:40:16 5132 2012-04-05 13:40:16 \N 0
356 est2genome_other_havana Alignment of ESTs (expressed sequence tags) from another species to the genome using the program Est2genome. ESTs are from dbEST Other EST (EST2genome) 1 1 \N \N \N \N 34 0
357 uniprot_sw_havana Proteins from the UniProtKB Swiss-Prot database, aligned to the genome by Havana. UniProt proteins 1 1 5132 2012-04-05 13:39:24 5132 2012-04-05 13:39:24 \N 0
358 uniprot_tr_havana Proteins from the UniProtKB TrEMBL database, aligned to the genome by Havana. TrEMBL proteins 1 1 5132 2012-04-05 13:39:29 5132 2012-04-05 13:39:29 \N 0
359 est2genome_fish_havana Alignment of zebrafish ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Zebrafish EST (EST2genome) 0 1 105967 2019-08-23 11:06:53 105967 2019-08-23 11:06:53 10 0
360 refseq_zebrafish_havana Zebrafish cDNAs from NCBI RefSeq are aligned to the genome using GeneWise. RefSeq cDNA (zebrafish) 0 1 5132 2012-04-05 05:29:34 5132 2012-04-05 05:29:34 9 0
361 est2genome_mouse_havana Alignment of mouse ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Mouse EST (EST2genome) 1 1 \N \N \N \N 34 0
362 bac_cloned_genomic_insert BAC_cloned_genomic_insert BAC_cloned_genomic_insert 1 0 \N \N \N \N \N 0
363 chromosome_band chromosome_band chromosome_band 1 0 \N \N \N \N \N 0
364 match match match 1 0 \N \N \N \N \N 0
365 match_part match_part match_part 1 0 \N \N \N \N \N 0
366 oligonucleotide oligonucleotide oligonucleotide 1 0 \N \N \N \N \N 0
367 orthologous_region orthologous_region orthologous_region 1 0 \N \N \N \N \N 0
368 orthologous_to orthologous_to orthologous_to 1 0 \N \N \N \N \N 0
369 pcr_product pcr_product pcr_product 1 0 \N \N \N \N \N 0
370 point_mutation point_mutation point_mutation 1 0 \N \N \N \N \N 0
371 repeat_region repeat_region repeat_region 0 1 105967 2019-08-16 10:15:12 105967 2019-08-16 10:15:12 \N 1
372 syntenic_region syntenic_region syntenic_region 1 0 \N \N \N \N \N 0
373 tandem_repeat tandem_repeat tandem_repeat 1 0 \N \N \N \N \N 0
374 transposable_element_insertion_site transposable_element_insertion_site transposable_element_insertion_site 1 0 \N \N \N \N \N 0
375 dna_motif DNA_motif DNA_motif 1 0 \N \N \N \N \N 0
376 microbat_protein Microbat protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Microbat proteins 1 1 5132 2012-04-05 13:25:14 5132 2012-04-05 13:25:14 \N 1
377 microbat_cdna Microbat cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Microbat cDNAs 1 1 105967 2019-08-23 10:39:41 105967 2019-08-23 10:39:41 9 0
378 riken_cage_tss Female K562 CAGE-defined Transcription Start Sites produced by Riken as part of the ENCODE collaboration. K562 CAGE-defined TSS 1 0 5132 2011-06-03 15:02:04 \N \N \N 0
379 lamprey_cdna Lamprey cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Lamprey cDNAs 1 1 97245 2011-06-24 13:12:19 105967 2019-08-23 10:37:13 9 0
380 lamprey_est Lamprey 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Lamprey ESTs 1 1 97245 2011-06-24 13:14:36 105967 2019-08-23 10:37:01 34 0
381 lamprey_protein Lamprey protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Lamprey proteins 1 1 97245 2011-06-24 13:22:20 5132 2012-04-05 13:23:42 \N 1
382 lamprey_consortium_abinitio_set Ab initio gene prediction by SNAP, Augustus and other tools provided by the lamprey_consortium. Additional prediction 1 1 97245 2011-06-24 13:48:08 \N \N 105 1
383 devil_cdna devil cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Tasmanian devil cDNAs 1 1 97245 2011-07-05 15:19:02 105967 2019-08-24 10:40:08 9 0
384 devil_protein devil protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Tasmanian devil proteins 1 1 97245 2011-07-05 15:19:13 5132 2012-04-05 13:13:42 \N 1
385 devil_merged_rnaseq Annotation generated using only Tasmanian devil RNASeq data. RNASeq 0 1 8 2011-07-08 14:34:47 97245 2012-11-16 10:25:04 1160 1
386 devil_merged_introns Spliced RNASeq read support for Tasmanian devil. Intron-spanning reads 0 1 8 2011-07-08 14:35:06 5132 2012-03-28 16:26:56 1159 1
387 cow_cdna2genome Cow cDNAs from NCBI RefSeq and EMBL are aligned to the genome using Exonerate cdna2genome model. Cow Refseq/ENA cdna2genome 1 1 97245 2011-07-15 11:49:25 \N \N 5 0
388 alt_seq_mapping Mappings between primary assembly and alternate loci or patches. Primary assembly mapping 1 1 161 2011-08-05 17:42:19 161 2016-02-17 18:11:54 73 1
389 projected_transcript Transcript from a high quality annotation projected to the assembly Projected transcript 0 1 124435 2011-08-08 11:38:59 124435 2020-12-04 13:28:55 \N 0
390 proj_ensembl Annotation produced by the Ensembl genebuild and projected to the alternate locus via a mapping from the primary assembly. Projected Ensembl 0 1 124435 2011-08-08 14:07:01 124435 2020-06-02 15:39:43 3 1
391 proj_ensembl_havana_gene Annotation for this gene includes both automatic annotation from Ensembl and Havana manual curation, see article. This was projected to the alternate locus via a mapping from the primary assembly. Projected Ensembl/Havana merge 0 1 124435 2011-08-08 14:07:01 124435 2020-06-02 15:40:08 3 1
8412 astyanax_mexicanus_female_bones_rnaseq_bam BWA alignments of female bones RNA-seq data. This BAM file can be downloaded from the Ensembl FTP site female bones RNA-seq BWA alignments 1 1 \N 2019-06-28 14:04:59 \N 2019-06-28 14:04:59 5956 1
392 proj_ensembl_havana_lincrna Long intergenic non-coding RNAs (lincRNAs) containing both Ensembl lincRNA transcripts annotated by the Ensembl lincRNA annotation pipeline and non-coding transcripts from Havana manual curation. These were projected to the alternate locus via a mapping from the primary assembly. Projected Ensembl/Havana merge lincRNA 0 1 105967 2011-08-08 14:07:01 105967 2019-08-24 10:22:11 2 1
393 proj_ensembl_ig_gene Immunoglobulin (Ig) and T-cell receptor (TcR) annotation was imported from the IMGT database using Exonerate and projected to the alternate locus via a mapping from the primary assembly. Projected Ensembl Ig/T-cell receptor 0 1 \N 2011-08-08 14:07:01 \N \N 3 1
394 proj_ensembl_lincrna Long intergenic non-coding RNAs (lincRNAs) were annotated by the Ensembl lincRNA annotation pipeline and projected to the alternate locus via a mapping from the primary assembly. Projected Ensembl lincRNA 0 1 107111 2011-08-08 14:07:01 107111 2015-05-29 13:35:24 3 1
395 proj_havana Manual annotation (determined on a case-by-case basis) from the Havana project, projected to the alternate locus via a mapping from the primary assembly. Projected Havana 0 1 161 2011-08-08 14:07:01 161 2019-06-27 08:57:29 3 1
396 proj_havana_ig_gene Immunoglobulin (Ig) and T-cell receptor (TcR) annotation imported from the manually curated IG gene set from theHavana project, projected to the alternate locus via a mapping from the primary assembly. Projected Havana Ig/T-cell receptor 0 1 161 2011-08-08 14:07:01 161 2019-06-27 08:56:35 3 1
397 proj_ncrna Non-coding RNAs (ncRNAs) predicted using sequences from RFAM and miRBase. See article. These were projected to the alternate locus via a mapping from the primary assembly. Projected ncRNA 1 1 101214 2011-08-08 14:07:01 101214 2015-06-19 12:36:20 3 1
398 proj_ncrna_pseudogene ncRNA pseudogenes imported from the manual annotation produced by Sean Eddy group and projected to the alternate locus via a mapping from the primary assembly. Projected ncRNA pseudogene 1 0 \N 2011-08-08 14:07:01 \N \N \N 0
399 proj_ensembl_havana_transcript Transcript where the Ensembl genebuild transcript and the Havana manual annotation have the same sequence, for every base pair. See article. This was projected to the alternate locus via a mapping from the primary assembly. Projected Ensembl/Havana merge 0 1 124435 2011-08-08 15:27:49 124435 2020-06-02 15:40:41 3 1
400 ferret_protein Ferret protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Ferret proteins 1 1 101214 2011-08-17 09:28:37 5132 2012-04-05 13:15:51 \N 1
401 ferret_est Ferret 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Ferret ESTs 1 1 101214 2011-08-17 09:44:28 5132 2012-04-05 13:15:44 34 1
402 ferret_cdna Ferret cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Ferret cDNAs 1 1 101214 2011-08-17 09:48:13 5132 2012-04-05 13:15:39 32 1
403 tilapia_est Tilapia 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Tilapia ESTs 1 1 101214 2011-08-17 16:04:22 5132 2012-04-05 13:38:04 34 1
404 tilapia_cdna Tilapia cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Tilapia cDNAs 1 1 101214 2011-08-17 16:05:47 5132 2012-04-05 13:37:55 32 1
405 tilapia_protein Tilapia protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Tilapia proteins 1 1 101214 2011-08-17 16:08:20 5132 2012-04-05 13:38:11 \N 1
406 zebrafish_ensembl_protein Zebrafish protein sequences from Ensembl are aligned to the genome using Exonerate. Zebrafish Ensembl proteins 1 1 101214 2011-08-17 16:12:26 124435 2022-04-29 09:54:11 90 1
407 stickleback_ensembl_protein Stickleback protein sequences from Ensembl are aligned to the genome using Exonerate. Stickleback Ensembl proteins 1 1 101214 2011-08-17 16:14:12 105967 2019-08-24 10:02:01 \N 0
408 repeatmask_cod_consortium RepeatMasker is used to find repeats using a cod repeat library provided by the Cod Consortium. This track usually shows repeats alone (not low-complexity sequences). Repeats (Cod) 1 1 5132 2011-08-18 10:20:41 \N \N \N 1
409 stickleback_projected_protein Alignment to a stickleback Ensembl protein inferred by projecting through a BLASTZ DNA alignment to the stickleback genome Stickleback projected proteins 1 1 5132 2011-08-26 15:02:39 5132 2012-04-05 13:37:01 \N 1
410 wga2genes_stickleback Alignment to a stickleback Ensembl protein inferred by projecting through a BLASTZ DNA alignment to the stickleback genome BLASTZ protein 1 0 5132 2011-08-26 15:04:18 \N \N \N 0
411 bushbaby_protein Bushbaby protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Bushbaby proteins 1 1 97245 2011-09-01 10:06:01 5132 2012-04-05 13:05:22 \N 1
412 marker_satmap 'SATMAP Markers, or sequence tagged sites (STS), from UniSTS are aligned to the genome using Electronic PCR (e-PCR).' SATMAP Markers 1 1 29 2011-10-12 16:17:36 5132 2012-04-05 13:24:32 \N 1
461 wormbase_non_coding Non-coding RNA imported from WormBase ncRNA 0 1 104856 2012-03-07 11:05:44 105967 2019-08-16 10:04:38 11 1
413 hamster_cdna Chinese hamster cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Hamster cDNAs 1 0 97245 2011-10-14 15:07:11 5132 2012-04-05 13:20:03 46 1
414 hamster_protein Chinese hamster protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Hamster proteins 1 0 97245 2011-10-14 15:07:44 101214 2015-06-19 12:36:20 78 1
1051 mouse_ensembl_protein Mouse protein sequences from Ensembl are aligned to the genome using Exonerate or GeneWise. Mouse Ensembl protein 1 1 107110 2013-06-28 12:55:17 101214 2015-06-19 12:05:44 78 1
416 coelacanth_protein Coelacanth protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Coelacanth proteins 1 1 29 2011-10-27 12:43:24 5132 2012-04-05 13:12:41 \N 1
417 coelacanth_cdna Coelacanth cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Coelacanth cDNAs 1 1 29 2011-10-27 12:44:23 105967 2019-08-24 10:12:11 9 0
549 chinese_softshell_turtle_est Pelodiscus sinensis 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Chinese softshell turtle ESTs 1 1 9335 2012-06-15 11:02:23 \N \N 94 1
419 cint_protein Ciona intestinalis protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise. C.intestinalis proteins 1 1 97245 2011-12-13 15:01:19 5132 2012-04-05 13:12:21 \N 1
420 coelacanth_repeatmask RepeatMasker is used to find repeats and low-complexity sequences using a coelacanth-specific repeat library. This track usually shows repeats alone (not low-complexity sequences). Repeats (Coelacanth) 1 1 29 2011-12-16 10:58:32 \N \N \N 1
421 coelacanth_muscle_introns Spliced RNASeq read support for coelacanth. Intron-spanning reads 0 1 29 2011-12-20 10:14:55 5132 2012-03-28 16:26:14 825 1
422 coelacanth_muscle_rnaseq Annotation generated using only Coelacanth RNASeq data RNASeq 0 1 29 2011-12-20 10:15:36 97245 2012-11-16 10:25:04 826 1
423 dog_cdna Dog cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Dog cDNAs 1 1 97245 2011-12-22 15:40:03 105967 2019-08-23 10:42:59 9 0
548 dog_cdna2genome Dog cDNAs from NCBI RefSeq and EMBL are aligned to the genome using Exonerate cdna2genome model. Dog Refseq/ENA cdna2genome 1 1 104957 2012-06-12 14:18:19 \N \N \N 0
425 repeatmask_squirrelmonkey RepeatMasker is used to find repeats using a custom repeat library generated using RepeatModeler. This track usually shows repeats alone (not low-complexity sequences). Repeats (Squirrel monkey) 1 0 5132 2012-01-04 17:54:51 \N \N \N 1
426 turkey_ensembl_protein Turkey protein sequences from Ensembl are aligned to the genome using Exonerate. Turkey Ensembl proteins 1 1 97245 2012-01-05 14:38:37 101214 2015-06-19 12:05:44 78 1
427 zebra_finch_ensembl_protein Zebrafinch protein sequences from Ensembl are aligned to the genome using Exonerate. Zebrafinch Ensembl proteins 1 1 97245 2012-01-05 14:39:16 105967 2019-08-24 10:01:14 \N 0
428 fugu_ensembl_cdna Selected Ensembl-predicted fugu transcript (cDNA) sequences from a previous Ensembl release were aligned to the genome using Exonerate or GeneWise. Fugu Ensembl cDNAs 0 1 5132 2012-01-10 10:23:29 5132 2012-04-05 13:16:15 \N 1
429 wga2genes_human Alignment of a human Ensembl protein inferred by projecting through a BLASTZ DNA alignment to the human genome BLASTZ protein 1 0 5132 2012-01-10 13:45:19 \N \N \N 0
431 cat_protein Cat protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Cat proteins 1 1 97245 2012-01-12 15:07:27 5132 2012-04-05 13:05:43 \N 1
432 cat_est Cat 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Cat ESTs 1 1 97245 2012-01-12 15:08:11 5132 2012-04-05 13:05:38 34 1
433 cat_cdna Cat cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Cat cDNAs 1 1 97245 2012-01-12 15:08:38 5132 2012-04-05 13:05:27 9 1
434 repeatmask_cat RepeatMasker is used to find repeats using a custom repeat library generated using RepeatModeler. This track usually shows repeats alone (not low-complexity sequences). Repeats (Cat) 1 1 97245 2012-01-12 15:12:36 \N \N \N 1
1906 dolphin_ensembl_protein Dolphin protein sequences from Ensembl are aligned to the genome using Exonerate. Dolphin Ensembl protein 1 0 107110 2014-08-28 14:33:03 101214 2015-06-19 12:05:44 78 1
1907 repeatmask_repbase_dolphin RepeatMasker was used to find repeats and low-complexity sequences using a dolphin repeat library in RepBase. This track usually shows repeats alone (not low-complexity sequences). Repeats (Dolphin) 1 0 107110 2014-08-28 15:21:14 \N \N \N 1
1908 repeatmask_repbase_whale RepeatMasker was used to find repeats and low-complexity sequences using a sperm whale repeat library in RepBase. This track usually shows repeats alone (not low-complexity sequences). Repeats (Sperm whale) 1 0 107110 2014-08-28 15:22:15 \N \N \N 1
436 squirrel_ensembl_protein Squirrel protein sequences from Ensembl are aligned to the genome using Exonerate. Squirrel Ensembl proteins 1 0 97245 2012-01-13 10:06:48 101214 2015-06-19 12:05:44 \N 0
437 squirrel_protein Squirrel protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Squirrel proteins 1 1 97245 2012-01-13 10:07:18 5132 2012-04-05 13:36:33 \N 0
438 squirrel_cdna Squirrel cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Squirrel cDNAs 1 1 97245 2012-01-13 10:07:43 5132 2012-04-05 13:36:18 9 0
439 repeatmask_squirrel RepeatMasker is used to find repeats using a custom repeat library generated using RepeatModeler. This track usually shows repeats alone (not low-complexity sequences). Repeats (Squirrel) 1 0 97245 2012-01-13 10:08:25 \N \N \N 0
440 squirrel_est Squirrel 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Squirrel ESTs 1 1 97245 2012-01-13 10:08:49 5132 2012-04-05 13:36:28 34 0
1895 chimp_nhprt_bwa_pooled Paired-end 101 bp RNAseq reads from a chimpanzee. Data were obtained from the Nonhuman Primate Reference Transcriptome Resource (nhprtr.org) and aligned to the CHIMP2.1.4 assembly using BWA. Download this BAM file from the Ensembl FTP (file:CHIMP2.1.4.NHPRT.merged.1.bam). Chimp nhprt pooled RNAseq alignments 0 0 106182 2014-08-19 15:22:45 101214 2015-06-19 12:36:20 \N 0
1896 chimp_nhprt_pooled_introns Spliced RNASeq read support for chimpanzee in pooled tissue Chimp nhprt pooled intron-spanning reads 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1897 chimp_nhprt_pooled_rnaseq Annotation generated using only RNASeq data from chimpanzee pooled tissue. Chimp nhprt pooled RNASeq 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1898 chimp_swiss_bwa_antoine_brain Paired-end RNAseq reads from a chimpanzee. Data were obtained from Henrik Kaessmann (University of Lausanne) and aligned to the CHIMP2.1.4 assembly using BWA. Download this BAM file from the Ensembl FTP (file:C6_antoine_br_r1_sorted.bam). Chimp Antoine brain RNAseq alignments 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1899 chimp_swiss_bwa_herman_brain Paired-end RNAseq reads from a chimpanzee. Data were obtained from Henrik Kaessmann (University of Lausanne) and aligned to the CHIMP2.1.4 assembly using BWA. Download this BAM file from the Ensembl FTP (file:C1_herman_br_r1_sorted.bam). Chimp Herman brain RNAseq alignments 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1900 chimp_swiss_bwa_japie_brain Paired-end RNAseq reads from a chimpanzee. Data were obtained from Henrik Kaessmann (University of Lausanne) and aligned to the CHIMP2.1.4 assembly using BWA. Download this BAM file from the Ensembl FTP (file:C2_Japie_br_r1_sorted.bam). Chimp Japie brain RNAseq alignments 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1901 chimp_swiss_bwa_koos_brain Paired-end RNAseq reads from a chimpanzee. Data were obtained from Henrik Kaessmann (University of Lausanne) and aligned to the CHIMP2.1.4 assembly using BWA. Download this BAM file from the Ensembl FTP (file:C5_koos_br_r1_sorted.bam). Chimp Koos brain RNAseq alignments 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1902 chimp_swiss_bwa_merged_brain Paired-end RNAseq reads from a chimpanzee. Data were obtained from Henrik Kaessmann (University of Lausanne) and aligned to the CHIMP2.1.4 assembly using BWA. Download this BAM file from the Ensembl FTP (file:merged_sorted.bam). Chimp merged brain RNAseq alignments 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
446 repeatmask_budgie RepeatMasker is used to find repeats using a custom repeat library generated using RepeatModeler. This track usually shows repeats alone (not low-complexity sequences). Repeats (Budgie) 1 0 29 2012-02-03 15:43:26 97245 2012-02-16 15:29:40 \N 1
447 budgie_protein Budgie protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Budgie proteins 1 0 29 2012-02-03 15:51:11 5132 2012-04-05 13:05:12 \N 1
448 budgie_cdna Budgie cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Budgie cDNAs 1 0 29 2012-02-03 15:52:02 5132 2012-04-05 13:05:16 9 1
449 platyfish_est Platyfish 'Expressed Sequence Tags' (ESTs) from dbEST are aligned to the genome using Exonerate. Platyfish ESTs 1 1 104979 2012-02-17 15:27:18 5132 2012-04-05 13:29:56 34 1
450 platyfish_protein Platyfish protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Platyfish proteins 1 1 104979 2012-02-17 15:30:13 5132 2012-04-05 13:30:03 \N 1
451 repeatmask_repeatmodeler RepeatMasker was used to find repeats using a custom repeat library for this species. The custom repeat library was generated using RepeatModeler. This track usually shows repeats alone (not low-complexity sequences). Repeats (RepeatModeler) 1 1 5132 2012-02-28 13:24:46 5132 2012-04-05 13:33:14 \N 1
452 wormbase_pseudogene WormBase curated pseudogene Pseudogene 0 1 104856 2012-03-07 09:23:58 105967 2019-08-16 10:04:43 104 1
453 rst Caenorhabditis elegans RSTs of the Vidal Lab aligned to the genome using BLAT C.elegans RST 1 0 104856 2012-03-07 09:26:39 104856 2012-03-07 09:38:09 36 0
454 wormbase_trna WormBase curated transfer RNA tRNA 1 0 104856 2012-03-07 09:27:16 \N \N \N 0
455 wormbase_rrna WormBase curated ribosomal RNA rRNA 1 0 104856 2012-03-07 09:27:38 \N \N \N 0
456 wormbase_ncrna WormBase curated non-coding RNA ncRNA 1 0 104856 2012-03-07 09:28:02 \N \N \N 0
457 wormbase_snrna WormBase curated small nuclear RNA snRNA 1 0 104856 2012-03-07 09:28:38 \N \N \N 0
458 wormbase_snlrna WormBase curated small nucleolar-like RNA snlRNA 1 0 104856 2012-03-07 09:29:18 \N \N \N 0
459 wormbase_snorna WormBase curated small nucleolar RNA snoRNA 1 0 104856 2012-03-07 09:29:51 \N \N \N 0
460 wormbase_mirna WormBase curated micro-RNA precursor miRNA 1 0 104856 2012-03-07 09:30:20 5132 2012-04-05 13:40:38 \N 0
1903 chimp_swiss_merged_brain_introns Spliced RNASeq read support for chimpanzee in merged brain tissue Chimp merged brain intron-spanning reads 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1904 chimp_swiss_merged_brain_rnaseq Annotation generated using only RNASeq data from chimpanzee merged brain tissue. Chimp merged brain RNASeq 0 0 106182 2014-08-19 15:22:45 \N \N \N 0
1905 vervet_monkey_merged_introns Spliced RNASeq read support for merged tissue set in C. sabaeus. The RNASeq data used was Bioproject PRJNA219331. Merged intron-spanning reads 0 1 104979 2014-08-21 09:59:51 101214 2015-06-19 12:36:20 \N 1
463 cbriggsae_est Caenorhabditis briggsae ESTs aligned to the genome using BLAT C.briggsae ESTs 1 0 104856 2012-03-12 15:20:55 104856 2012-03-20 13:44:48 5 0
464 cbriggsae_mrna Caenorhabditis briggsae mRNAs are aligned to the genome using BLAT C.briggsae mRNAs 1 0 104856 2012-03-12 15:21:16 104856 2012-03-20 13:45:02 5 0
465 genblast Prediction of protein coding genes by GenBlastG, using C. elegans proteins GenBlastG predictions 1 0 104856 2012-03-12 16:04:38 104856 2012-03-20 13:47:07 \N 0
466 xrefchecksum UniParc mapping based on sequence checksums UniParc cross-reference 0 1 97804 2012-03-22 09:34:19 105967 2019-05-01 10:55:10 \N 0
468 coelacanth_ensembl_protein Coelacanth protein sequences from Ensembl are aligned to the genome using Exonerate. Coelacanth Ensembl Protein 1 0 5132 2012-03-30 19:05:00 101214 2015-06-19 12:05:44 78 1
469 pig_ensembl_protein Pig protein sequences from Ensembl are aligned to the genome using Exonerate. Pig Ensembl Proteins 1 1 14183 2012-04-02 14:26:18 101214 2017-07-12 10:23:49 \N 0
470 green_anole_ensembl_protein Green Anole Lizard protein sequences from Ensembl are aligned to the genome using Exonerate. Anole Ensembl protein 1 1 105157 2012-04-02 15:26:53 105967 2019-08-23 10:38:13 78 0
471 painted_turtle_protein Painted turtle protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Painted turtle proteins 1 0 105157 2012-04-02 15:58:35 5132 2012-04-05 13:28:31 78 1
472 painted_turtle_454_brains Painted turtle reads from 454 sequencing of brain tissue are aligned to the genome using Exonerate. Turtle brain sequence reads (454) 0 0 105157 2012-04-02 16:04:16 5132 2012-04-05 13:27:47 36 1
473 painted_turtle_454_ovaries Painted turtle reads from 454 sequencing of ovary tissue are aligned to the genome using Exonerate. Turtle ovary sequence reads (454) 0 0 105157 2012-04-02 16:04:42 5132 2012-04-05 13:27:58 36 1
474 painted_turtle_454_testes Painted turtle reads from 454 sequencing of testes tissue are aligned to the genome using Exonerate. Turtle testis sequence reads (454) 0 0 105157 2012-04-02 16:05:01 5132 2012-04-05 13:28:28 36 1
475 painted_turtle_454_trunks Painted turtle reads from 454 sequencing of trunk tissue are aligned to the genome using Exonerate. Turtle trunk sequence reads (454) 0 0 105157 2012-04-02 16:05:18 5132 2012-04-05 13:28:23 36 1
476 pig_merged_rnaseq Annotation generated using only pig RNASeq data Merged RNASeq 0 1 5132 2012-04-03 09:07:07 97245 2012-11-16 10:25:04 1042 1
477 pig_merged_introns Spliced RNASeq read support for pig. Merged intron-spanning reads 0 1 5132 2012-04-03 09:07:45 \N \N 1041 1
502 tilapia_bwa_brain Paired-end 101 bp RNAseq reads from O. niloticus brain tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_brain_sorted.bam). Brain RNAseq alignments 0 1 5132 2012-04-05 18:11:37 101214 2015-06-19 12:36:20 700 1
503 tilapia_bwa_kidney Paired-end 101 bp RNAseq reads from O. niloticus kidney tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_kidney_sorted.bam). Kidney RNAseq alignments 0 1 5132 2012-04-05 18:12:16 101214 2015-06-19 12:36:20 728 1
501 tilapia_bwa_testis Paired-end 101 bp RNAseq reads from O. niloticus testis tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_testis_sorted.bam). Testis RNAseq alignments 0 1 5132 2012-04-05 18:10:58 101214 2015-06-19 12:36:20 730 1
500 tilapia_bwa_heart Paired-end 101 bp RNAseq reads from O. niloticus heart tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_heart_sorted.bam). Heart RNAseq alignments 0 1 5132 2012-04-05 18:10:06 101214 2015-06-19 12:36:20 702 1
499 tilapia_bwa_blood Paired-end 101 bp RNAseq reads from O. niloticus blood. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_blood_sorted.bam). Blood RNAseq alignments 0 1 5132 2012-04-05 18:09:25 101214 2015-06-19 12:36:20 727 1
498 tilapia_bwa_embryo Paired-end 101 bp RNAseq reads from O. niloticus embryo tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_embryo_sorted.bam). Embryo RNAseq alignments 0 1 5132 2012-04-05 18:08:36 101214 2015-06-19 12:36:20 815 1
497 tilapia_bwa_eye Paired-end 101 bp RNAseq reads from O. niloticus eye tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_eye_sorted.bam). Eye RNAseq alignments 0 1 5132 2012-04-05 18:03:54 101214 2015-06-19 12:36:20 816 1
488 pig_bwa_male_gonad Paired-end 54 bp RNAseq reads obtained from the Swine Genome Sequencing Consortium were aligned to the Sscrofa10.2 assembly using BWA. The data are from male gonad. Download this BAM file from the Ensembl FTP (file:male_gonad_sorted.bam). Male gonad RNASeq alignments 0 1 5132 2012-04-03 11:24:35 101214 2013-02-07 11:53:21 \N 1
491 pig_bwa_totalrna_placental Paired-end 51 bp RNAseq reads obtained from the Swine Genome Sequencing Consortium were aligned to the Sscrofa10.2 assembly using BWA. The data are from placenta. Download this BAM file from the Ensembl FTP (file:totalRNA_placental_paired_sorted.bam). Placenta RNASeq alignments 0 1 5132 2012-04-03 11:27:45 101214 2013-02-07 11:53:33 \N 1
492 pig_bwa_totalrna_testis Paired-end 51 bp RNAseq reads obtained from the Swine Genome Sequencing Consortium were aligned to the Sscrofa10.2 assembly using BWA. The data are from testis. Download this BAM file from the Ensembl FTP (file:totalRNA_testis_paired_sorted.bam). Testis RNASeq alignments 0 1 5132 2012-04-03 11:28:40 101214 2013-02-07 11:53:39 \N 1
493 pig_bwa_merged All RNAseq reads obtained from the Swine Genome Sequencing Consortium were aligned to the Sscrofa11.1 assembly using BWA. The data are from a range of tissues. Download this BAM file from the Ensembl FTP (file:Sscrofa11.1.SGSC.merged.1.bam). Merged RNASeq alignments 0 1 5132 2012-04-03 11:29:33 101214 2017-07-11 16:28:19 1037 1
494 pig_bwa_10tissue Paired-end 50 bp RNAseq reads obtained from the Swine Genome Sequencing Consortium were aligned to the Sscrofa10.2 assembly using BWA. The data are pooled from colon, kidney, hypothalamus, spleen, small intestine, lymph node, liver, frontal lobe, cerebellum, and placenta. Download this BAM file from the Ensembl FTP (file:10tissue_merged_sorted.bam). 10 tissues RNAseq alignments 0 1 5132 2012-04-05 08:49:04 101214 2013-02-07 11:53:10 \N 1
495 pig_bwa_alveolar_macrophage Paired-end 35 bp RNAseq reads obtained from the Swine Genome Sequencing Consortium were aligned to the Sscrofa10.2 assembly using BWA. The data are from alveolar macrophages. Download this BAM file from the Ensembl FTP (file:alveolar_macrophage_merged_sorted.bam). Alveolar macrophage RNASeq alignments 0 1 5132 2012-04-05 08:49:56 101214 2013-02-07 11:53:16 \N 1
496 pig_bwa_whole_blood Single-end 83 bp RNAseq reads obtained from the Swine Genome Sequencing Consortium were aligned to the Sscrofa10.2 assembly using BWA. The data are whole blood. Download this BAM file from the Ensembl FTP (file:whole_blood_merged_sorted.bam). Whole blood RNASeq alignments 0 1 5132 2012-04-05 08:50:31 101214 2013-02-07 11:53:44 \N 1
504 tilapia_bwa_liver Paired-end 101 bp RNAseq reads from O. niloticus liver tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_liver_sorted.bam). Liver RNAseq alignments 0 1 5132 2012-04-05 18:12:54 101214 2015-06-19 12:36:20 703 1
505 tilapia_bwa_muscle Paired-end 101 bp RNAseq reads from O. niloticus muscle tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_muscle_sorted.bam). Muscle RNAseq alignments 0 1 5132 2012-04-05 18:13:24 101214 2015-06-19 12:36:20 818 1
506 tilapia_bwa_ovary Paired-end 101 bp RNAseq reads from O. niloticus ovary tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_ovary_sorted.bam). Ovary RNAseq alignments 0 1 5132 2012-04-05 18:14:01 101214 2015-06-19 12:36:20 706 1
507 tilapia_bwa_skin Paired-end 101 bp RNAseq reads from O. niloticus skin tissue. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus_skin_sorted.bam). Skin RNAseq alignments 0 1 5132 2012-04-05 18:14:58 101214 2015-06-19 12:36:20 729 1
508 tilapia_bwa_merged Paired-end 101 bp RNAseq reads from 11 O. niloticus tissues. Data were obtained from the Broad Institute and aligned to the Orenil1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:Oreochromis_niloticus.all_tissues_sorted.bam). Merged RNAseq alignments (11 tissues) 0 1 5132 2012-04-05 18:17:36 101214 2015-06-19 12:36:20 705 1
509 tilapia_embryo_rnaseq Annotation generated using only RNASeq data from O. niloticus embryo tissue. Embryo RNASeq 0 1 5132 2012-04-05 18:59:35 97245 2012-11-16 10:25:04 820 1
510 tilapia_blood_rnaseq Annotation generated using only RNASeq data from O. niloticus blood. Blood RNASeq 0 1 5132 2012-04-05 19:00:10 97245 2012-11-16 10:25:04 726 1
511 tilapia_eye_rnaseq Annotation generated using only RNASeq data from O. niloticus eye tissue. Eye RNASeq 0 1 5132 2012-04-05 19:00:36 97245 2012-11-16 10:25:04 822 1
512 tilapia_heart_rnaseq Annotation generated using only RNASeq data from O. niloticus heart tissue. Heart RNASeq 0 1 5132 2012-04-05 19:01:02 97245 2012-11-16 10:25:04 712 1
513 tilapia_testis_rnaseq Annotation generated using only RNASeq data from O. niloticus testis tissue. Testis RNASeq 0 1 5132 2012-04-05 19:01:28 97245 2012-11-16 10:25:04 736 1
514 tilapia_brain_rnaseq Annotation generated using only RNASeq data from O. niloticus brain tissue. Brain RNASeq 0 1 5132 2012-04-05 19:01:51 97245 2012-11-16 10:25:04 698 1
515 tilapia_kidney_rnaseq Annotation generated using only RNASeq data from O. niloticus kidney tissue. Kidney RNASeq 0 1 5132 2012-04-05 19:02:20 97245 2012-11-16 10:25:04 732 1
516 tilapia_liver_rnaseq Annotation generated using only RNASeq data from O. niloticus liver tissue. Liver RNASeq 0 1 5132 2012-04-05 19:02:39 97245 2012-11-16 10:25:04 714 1
517 tilapia_muscle_rnaseq Annotation generated using only RNASeq data from O. niloticus muscle tissue. Muscle RNASeq 0 1 5132 2012-04-05 19:03:01 97245 2012-11-16 10:25:04 826 1
518 tilapia_ovary_rnaseq Annotation generated using only RNASeq data from O. niloticus ovary tissue. Ovary RNASeq 0 1 5132 2012-04-05 19:03:28 97245 2012-11-16 10:25:04 720 1
519 tilapia_skin_rnaseq Annotation generated using only RNASeq data from O. niloticus skin. Skin RNASeq 0 1 5132 2012-04-05 19:03:56 97245 2012-11-16 10:25:04 734 1
520 tilapia_merged_rnaseq Annotation generated using only RNASeq data from O. niloticus 11 tissues: blood, brain, embryo, eye, heart, kidney, liver, muscle, ovary, skin, testis. Merged RNASeq 0 1 5132 2012-04-05 19:09:46 97245 2012-11-16 10:25:04 718 1
521 tilapia_blood_introns Spliced RNASeq read support for O. niloticus blood. Blood intron-spanning reads 0 1 5132 2012-04-05 19:12:10 \N \N 725 1
522 tilapia_brain_introns Spliced RNASeq read support for O. niloticus brain tissue. Brain intron-spanning reads 0 1 5132 2012-04-05 19:12:38 \N \N 697 1
523 tilapia_embryo_introns Spliced RNASeq read support for O. niloticus embryo tissue. Embryo intron-spanning reads 0 1 5132 2012-04-05 19:13:00 \N \N 819 1
524 tilapia_eye_introns Spliced RNASeq read support for O. niloticus eye tissue. Eye intron-spanning reads 0 1 5132 2012-04-05 19:13:18 \N \N 821 1
525 tilapia_liver_introns Spliced RNASeq read support for O. niloticus liver tissue. Liver intron-spanning reads 0 1 5132 2012-04-05 19:13:40 \N \N 713 1
526 tilapia_kidney_introns Spliced RNASeq read support for O. niloticus kidney tissue. Kidney intron-spanning reads 0 1 5132 2012-04-05 19:14:07 \N \N 731 1
527 tilapia_muscle_introns Spliced RNASeq read support for O. niloticus muscle tissue. Muscle intron-spanning reads 0 1 5132 2012-04-05 19:14:30 \N \N 825 1
528 tilapia_heart_introns Spliced RNASeq read support for O. niloticus heart tissue. Heart intron-spanning reads 0 1 5132 2012-04-05 19:15:06 \N \N 711 1
529 tilapia_skin_introns Spliced RNASeq read support for O. niloticus skin tissue. Skin intron-spanning reads 0 1 5132 2012-04-05 19:15:28 \N \N 733 1
530 tilapia_testis_introns Spliced RNASeq read support for O. niloticus testis tissue. Testis intron-spanning reads 0 1 5132 2012-04-05 19:15:50 \N \N 735 1
531 tilapia_ovary_introns Spliced RNASeq read support for O. niloticus ovary tissue. Ovary intron-spanning reads 0 1 5132 2012-04-05 19:16:26 \N \N 719 1
532 tilapia_merged_introns Spliced RNASeq read support for 11 O. niloticus tissues. Merged intron-spanning reads 0 1 5132 2012-04-05 19:16:52 \N \N 717 1
533 painted_turtle_rnaseq_brain_rs8 Paired-end 100 bp RNA-seq reads from brain tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (brain, RS8) 0 0 105157 2012-05-15 15:29:23 101214 2013-02-07 12:03:13 92 0
546 rat_ensembl_protein Rat protein sequences from Ensembl are aligned to the genome using Exonerate. Rat Ensembl protein 1 1 5132 2012-05-22 15:57:56 101214 2015-06-19 12:05:44 4 1
534 painted_turtle_rnaseq_brain_rs11 Paired-end 100 bp RNA-seq reads from brain tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (brain, RS11) 0 0 105157 2012-05-15 15:30:27 101214 2013-02-07 12:03:49 92 0
535 painted_turtle_rnaseq_brain_rs15 Paired-end 100 bp RNA-seq reads from brain tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (brain, RS15) 0 0 105157 2012-05-15 15:30:51 101214 2013-02-07 12:03:37 92 0
547 chinese_softshell_turtle_ensembl_protein Chinese softshell turtle protein sequences from Ensembl are aligned to the genome using Exonerate. Chinese softshell turtle Ensembl proteins 1 0 105157 2012-05-24 12:48:41 101214 2015-06-19 12:05:44 78 1
536 painted_turtle_rnaseq_brain_rs16 Paired-end 100 bp RNA-seq reads from brain tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (brain, RS16) 0 0 105157 2012-05-15 15:31:10 101214 2013-02-07 12:03:26 92 0
537 painted_turtle_rnaseq_heart_rs8 Paired-end 100 bp RNA-seq reads from heart tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (heart, RS8) 0 0 105157 2012-05-15 15:32:01 101214 2013-02-07 12:00:21 92 0
538 painted_turtle_rnaseq_heart_rs11 Paired-end 100 bp RNA-seq reads from heart tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (heart, RS11) 0 0 105157 2012-05-15 15:32:24 101214 2013-02-07 12:02:58 92 0
539 painted_turtle_rnaseq_heart_rs15 Paired-end 100 bp RNA-seq reads from heart tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (heart, RS15) 0 0 105157 2012-05-15 15:32:46 101214 2013-02-07 12:02:46 92 0
540 painted_turtle_rnaseq_heart_rs16 Paired-end 100 bp RNA-seq reads from heart tissue were aligned to the ChrPicBel3.0.1 assembly using BWA. Painted turtle RNA-seq data (heart, RS16) 0 0 105157 2012-05-15 15:33:03 101214 2013-02-07 12:02:35 92 0
541 chinese_softshell_turtle_454 Chinese softshell turtle reads from 454 Titanium sequencing are aligned to the genome using Exonerate. Chinese softshell turtle sequence reads (454) 0 1 9335 2012-05-20 17:38:02 105967 2019-08-23 10:37:39 34 0
542 chinese_softshell_turtle_cdna Chinese softshell turtle cDNAs from NCBI RefSeq and ENA are aligned to the genome using Exonerate. Chinese softshell turtle cDNAs 1 1 9335 2012-05-20 17:38:57 105967 2019-08-23 10:37:51 32 0
543 uniprot_sauropsida Avian and reptilian proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted (sauropsids) peptides to UniProtKB proteins. Avian and reptilian UniProt proteins 1 1 9335 2012-05-20 17:48:35 101214 2020-01-02 15:41:48 \N 1
544 uniprot_non_sauropsida Vertebrate proteins excluding the avian and reptilian proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted (non-sauropsids) peptides to UniProtKB proteins. Proteins (non-avian and non-reptilian vertebrate) from UniProt 1 1 9335 2012-05-20 17:50:43 101214 2020-01-02 15:40:16 \N 1
545 rat_protein Rat protein sequences from UniProtKB and NCBI RefSeq are aligned to the genome using GeneWise or Exonerate. Rat proteins 1 0 5132 2012-05-22 15:57:18 \N \N 78 1
550 dog_liver_introns Spliced RNASeq read support for Canis familiaris liver tissue. Liver intron-spanning reads 0 1 104957 2012-06-19 12:11:51 \N \N 713 1
551 dog_blood_introns Spliced RNASeq read support for Canis familiaris blood. Blood intron-spanning reads 0 1 104957 2012-06-19 12:13:21 104957 2012-06-19 12:16:19 725 1
552 dog_heart_introns Spliced RNASeq read support for Canis familiaris heart tissue. Heart intron-spanning reads 0 1 104957 2012-06-19 12:14:07 \N \N 711 1
553 dog_testis_introns Spliced RNASeq read support for Canis familiaris testis tissue. Testis intron-spanning reads 0 1 104957 2012-06-19 12:14:32 \N \N 735 1
554 dog_lung_introns Spliced RNASeq read support for Canis familiaris lung tissue. Lung intron-spanning reads 0 1 104957 2012-06-19 12:14:54 \N \N 715 1
555 dog_brain_introns Spliced RNASeq read support for Canis familiaris brain tissue. Brain intron-spanning reads 0 1 104957 2012-06-19 12:15:14 \N \N 697 1
556 dog_skin_introns Spliced RNASeq read support for Canis familiaris skin tissue. Skin intron-spanning reads 0 1 104957 2012-06-19 12:15:35 \N \N 733 1
557 dog_sk_m_introns Spliced RNASeq read support for Canis familiaris skeletal muscle tissue. Skeletal muscle intron-spanning reads 0 1 104957 2012-06-19 12:17:43 \N \N 721 1
558 dog_kidney_introns Spliced RNASeq read support for Canis familiaris kidney tissue. Kidney intron-spanning reads 0 1 104957 2012-06-19 12:18:23 \N \N 731 1
559 dog_merged_introns Spliced RNASeq read support for 10 Canis familiaris tissues: blood, brain, heart, kidney, liver, lung, ovary, skin, skeletal muscle and testis. Merged intron-spanning reads 0 1 104957 2012-06-19 12:21:42 104957 2012-06-19 12:25:30 717 1
560 dog_ovary_introns Spliced RNASeq read support for Canis familiaris ovary tissue. Ovary intron-spanning reads 0 1 104957 2012-06-19 12:22:17 \N \N 719 1
561 dog_brain_rnaseq Annotation generated using only RNASeq data from Canis familiaris brain tissue. Brain RNASeq 0 1 104957 2012-06-19 12:23:55 97245 2012-11-16 10:25:04 698 1
562 dog_merged_rnaseq Annotation generated using only RNASeq data from Canis familiaris 10 tissues: blood, brain, heart, kidney, liver, lung, ovary, skin, skeletal muscle and testis. Merged RNASeq 0 1 104957 2012-06-19 12:25:03 97245 2012-11-16 10:25:04 718 1
563 dog_blood_rnaseq Annotation generated using only RNASeq data from Canis familiaris blood. Blood RNASeq 0 1 104957 2012-06-19 12:26:28 97245 2012-11-16 10:25:04 726 1
564 dog_liver_rnaseq Annotation generated using only RNASeq data from Canis familiaris liver tissue. Liver RNASeq 0 1 104957 2012-06-19 12:27:17 97245 2012-11-16 10:25:04 714 1
565 dog_ovary_rnaseq Annotation generated using only RNASeq data from Canis familiaris ovary tissue. Ovary RNASeq 0 1 104957 2012-06-19 12:27:37 97245 2012-11-16 10:25:04 720 1
566 dog_testis_rnaseq Annotation generated using only RNASeq data from Canis familiaris testis tissue. Testis RNASeq 0 1 104957 2012-06-19 12:27:56 97245 2012-11-16 10:25:04 736 1
567 dog_lung_rnaseq Annotation generated using only RNASeq data from Canis familiaris lung tissue. Lung RNASeq 0 1 104957 2012-06-19 12:28:15 97245 2012-11-16 10:25:04 716 1
568 dog_kidney_rnaseq Annotation generated using only RNASeq data from Canis familiaris kidney tissue. Kidney RNASeq 0 1 104957 2012-06-19 12:28:34 97245 2012-11-16 10:25:04 732 1
569 dog_sk_m_rnaseq Annotation generated using only RNASeq data from Canis familiaris skeletal muscle tissue. Skeletal muscle RNASeq 0 1 104957 2012-06-19 12:29:00 97245 2012-11-16 10:25:04 722 1
570 dog_heart_rnaseq Annotation generated using only RNASeq data from Canis familiaris heart tissue. Heart RNASeq 0 1 104957 2012-06-19 12:29:41 97245 2012-11-16 10:25:04 712 1
571 dog_skin_rnaseq Annotation generated using only RNASeq data from Canis familiaris skin tissue. Skin RNASeq 0 1 104957 2012-06-19 12:29:57 97245 2012-11-16 10:25:04 734 1
572 dog_bwa_merged Paired-end 101 bp RNAseq reads from 10 Canis familiaris tissues: blood, brain, heart, kidney, liver, lung, ovary, skin, skeletal muscle and testis. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_all_tissues_sorted.bam). Merged RNAseq alignments (10 tissues) 0 1 104957 2012-06-19 12:46:56 101214 2015-06-19 12:36:20 705 1
573 dog_bwa_brain Paired-end 101 bp RNAseq reads from Canis familiaris brain tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_brain_sorted.bam). Brain RNAseq alignments 0 1 104957 2012-06-19 12:51:38 101214 2015-06-19 12:36:20 700 1
574 dog_bwa_blood Paired-end 101 bp RNAseq reads from Canis familiaris blood. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_blood_sorted.bam). Blood RNAseq alignments 0 1 104957 2012-06-19 12:52:16 101214 2015-06-19 12:36:20 727 1
575 dog_bwa_kidney Paired-end 101 bp RNAseq reads from Canis familiaris kidney tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_kidney_sorted.bam). Kidney RNAseq alignments 0 1 104957 2012-06-19 12:53:02 101214 2015-06-19 12:36:20 728 1
576 dog_bwa_liver Paired-end 101 bp RNAseq reads from Canis familiaris liver tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_liver_sorted.bam). Liver RNAseq alignments 0 1 104957 2012-06-19 12:53:26 101214 2015-06-19 12:36:20 703 1
577 dog_bwa_heart Paired-end 101 bp RNAseq reads from Canis familiaris heart tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_heart_sorted.bam). Heart RNAseq alignments 0 1 104957 2012-06-19 12:53:47 101214 2015-06-19 12:36:20 702 1
578 dog_bwa_ovary Paired-end 101 bp RNAseq reads from Canis familiaris ovary tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_ovary_sorted.bam). Ovary RNAseq alignments 0 1 104957 2012-06-19 12:54:27 101214 2015-06-19 12:36:20 706 1
579 dog_bwa_testis Paired-end 101 bp RNAseq reads from Canis familiaris testis tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_testis_sorted.bam). Testis RNAseq alignments 0 1 104957 2012-06-19 12:55:02 101214 2015-06-19 12:36:20 730 1
580 dog_bwa_sk_m Paired-end 101 bp RNAseq reads from Canis familiaris skeletal muscle tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_sk_m_sorted.bam). Skeletal muscle RNAseq alignments 0 1 104957 2012-06-19 12:56:21 101214 2015-06-19 12:36:20 707 1
581 dog_bwa_lung Paired-end 101 bp RNAseq reads from Canis familiaris lung tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_lung_sorted.bam). Lung RNAseq alignments 0 1 104957 2012-06-19 12:57:02 101214 2015-06-19 12:36:20 704 1
582 dog_bwa_skin Paired-end 101 bp RNAseq reads from Canis familiaris skin tissue. Data were obtained from the Broad Institute and aligned to the CanFam3.1 assembly using BWA. Download this BAM file from the Ensembl FTP (file:canis_familiaris_skin_sorted.bam). Skin RNAseq alignments 0 1 104957 2012-06-19 12:57:47 101214 2015-06-19 12:36:20 729 1
583 chinese_softshell_turtle_9stages_introns Spliced RNASeq read support for 9 developmental stages in P. sinensis. Nine developmental stage intron-spanning reads 0 1 9335 2012-06-25 08:52:05 9335 2012-07-05 10:31:13 1123 1
584 chinese_softshell_turtle_9stages_rnaseq Annotation generated using only RNASeq data from 9 developmental stages in P. sinensis. Nine developmental stages RNASeq 0 1 9335 2012-06-25 08:53:49 97245 2012-11-16 10:25:04 1124 1
585 chinese_softshell_turtle_bwa_9stages Single-end 90 bp RNAseq reads for nine developmental stages from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_9stages.bam). Nine developmental stages RNASeq alignments 0 1 9335 2012-06-26 16:31:01 101214 2015-06-19 12:36:20 1125 1
586 chinese_softshell_turtle_gastrula_introns Spliced RNASeq read support for gastrula developmental stage in P. sinensis. Gastrula intron-spanning reads 0 1 9335 2012-06-27 09:03:09 9335 2012-07-05 10:30:47 1137 1
587 chinese_softshell_turtle_neurula_introns Spliced RNASeq read support for neurula developmental stage in P. sinensis. Neurula intron-spanning reads 0 1 9335 2012-06-27 09:03:37 9335 2012-07-05 10:30:14 1140 1
588 chinese_softshell_turtle_pooled_introns Spliced RNASeq read support for P. sinensis. The data are pooled from nine developmental stages: gastrula, neurula, tk7, tk9, tk11, tk13, tk15, tk17 and tk23. Pooled intron-spanning reads 0 1 9335 2012-06-27 09:08:12 9335 2012-06-27 09:18:14 1142 1
589 chinese_softshell_turtle_tk11_introns Spliced RNASeq read support for tk11 developmental stage in P. sinensis. tk11 intron-spanning reads 0 1 9335 2012-06-27 09:12:45 9335 2012-07-05 10:29:58 1144 1
590 chinese_softshell_turtle_tk13_introns Spliced RNASeq read support for tk13 developmental stage in P. sinensis. tk13 intron-spanning reads 0 1 9335 2012-06-27 09:13:11 9335 2012-07-05 10:29:51 1146 1
591 chinese_softshell_turtle_tk15_introns Spliced RNASeq read support for tk15 developmental stage in P. sinensis. tk15 intron-spanning reads 0 1 9335 2012-06-27 09:13:31 9335 2012-07-05 10:29:34 1148 1
592 chinese_softshell_turtle_tk17_introns Spliced RNASeq read support for tk17 developmental stage in P. sinensis. tk17 intron-spanning reads 0 1 9335 2012-06-27 09:13:47 9335 2012-07-05 10:29:23 1150 1
593 chinese_softshell_turtle_tk23_introns Spliced RNASeq read support for tk23 developmental stage in P. sinensis. tk23 intron-spanning reads 0 1 9335 2012-06-27 09:14:04 9335 2012-07-05 10:29:15 1152 1
594 chinese_softshell_turtle_tk7_introns Spliced RNASeq read support for tk7 developmental stage in P. sinensis. tk7 intron-spanning reads 0 1 9335 2012-06-27 09:14:19 9335 2012-07-05 10:28:57 1154 1
595 chinese_softshell_turtle_tk9_introns Spliced RNASeq read support for tk9 developmental stage in P. sinensis. tk9 intron-spanning reads 0 1 9335 2012-06-27 09:14:36 9335 2012-07-05 10:33:32 1156 1
596 chinese_softshell_turtle_gastrula_rnaseq Annotation generated using only RNASeq data from gastrula developmental stage in P. sinensis. Gastrula RNASeq 0 1 9335 2012-06-27 09:15:48 97245 2012-11-16 10:25:04 1138 1
597 chinese_softshell_turtle_neurula_rnaseq Annotation generated using only RNASeq data from neurula developmental stage in P. sinensis. Neurula RNASeq 0 1 9335 2012-06-27 09:16:14 97245 2012-11-16 10:25:04 1141 1
598 chinese_softshell_turtle_pooled_rnaseq Annotation generated using pooled RNASeq data for P. sinensis. Pooled RNASeq 0 1 9335 2012-06-27 09:19:01 97245 2012-11-16 10:25:04 1143 1
599 chinese_softshell_turtle_tk11_rnaseq Annotation generated using only RNASeq data from tk11 developmental stage in P. sinensis. tk11 RNASeq 0 1 9335 2012-06-27 09:19:22 97245 2012-11-16 10:25:04 1145 1
600 chinese_softshell_turtle_tk13_rnaseq Annotation generated using only RNASeq data from tk13 developmental stage in P. sinensis. tk13 RNASeq 0 1 9335 2012-06-27 09:19:39 97245 2012-11-16 10:25:04 1147 1
601 chinese_softshell_turtle_tk15_rnaseq Annotation generated using only RNASeq data from tk15 developmental stage in P. sinensis. tk15 RNASeq 0 1 9335 2012-06-27 09:19:57 97245 2012-11-16 10:25:04 1149 1
602 chinese_softshell_turtle_tk17_rnaseq Annotation generated using only RNASeq data from tk17 developmental stage in P. sinensis. tk17 RNASeq 0 1 9335 2012-06-27 09:20:10 97245 2012-11-16 10:25:04 1151 1
603 chinese_softshell_turtle_tk23_rnaseq Annotation generated using only RNASeq data from tk23 developmental stage in P. sinensis. tk23 RNASeq 0 1 9335 2012-06-27 09:20:24 97245 2012-11-16 10:25:04 1153 1
604 chinese_softshell_turtle_tk7_rnaseq Annotation generated using only RNASeq data from tk7 developmental stage in P. sinensis. tk7 RNASeq 0 1 9335 2012-06-27 09:20:38 97245 2012-11-16 10:25:04 1155 1
605 chinese_softshell_turtle_tk9_rnaseq Annotation generated using only RNASeq data from tk9 developmental stage in P. sinensis. tk9 RNASeq 0 1 9335 2012-06-27 09:20:51 97245 2012-11-16 10:25:04 1157 1
606 chinese_softshell_turtle_merged_introns Spliced RNASeq read support for all data provided for P. sinensis. Merged intron-spanning reads 0 0 9335 2012-06-27 09:24:17 \N \N \N 0
607 chinese_softshell_turtle_merged_rnaseq Annotation generated using all RNASeq data for P. sinensis. Merged RNASeq 0 1 9335 2012-06-27 09:24:53 97245 2012-11-16 10:25:04 1139 1
608 chinese_softshell_turtle_bwa_gastrula Single-end 90 bp RNAseq reads for gasturla developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_gastrula.bam). Gastrula RNASeq alignments 0 1 9335 2012-06-27 09:26:10 101214 2015-06-19 12:36:20 1126 1
609 chinese_softshell_turtle_bwa_merged All RNAseq reads provided for Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_merged.bam). Merged RNASeq alignments 0 1 9335 2012-06-27 13:29:58 101214 2015-06-19 12:36:20 1127 1
610 chinese_softshell_turtle_bwa_neurula Single-end 90 bp RNAseq reads for neurula developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_neurula.bam). Neurula RNASeq alignments 0 1 9335 2012-06-27 13:31:10 101214 2015-06-19 12:36:20 1128 1
611 chinese_softshell_turtle_bwa_pooled Paired-end 100 bp RNAseq reads for pooled developmental stages from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_pooled.bam). Pooled RNASeq alignments 0 1 9335 2012-06-27 13:33:46 101214 2015-06-19 12:36:20 1129 1
612 chinese_softshell_turtle_bwa_tk11 Single-end 90 bp RNAseq reads for tk11 developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_tk11.bam). tk11 RNASeq alignments 0 1 9335 2012-06-27 13:34:52 101214 2015-06-19 12:36:20 1130 1
613 chinese_softshell_turtle_bwa_tk13 Single-end 90 bp RNAseq reads for tk13 developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_tk13.bam). tk13 RNASeq alignments 0 1 9335 2012-06-27 13:35:26 101214 2015-06-19 12:36:20 1131 1
614 chinese_softshell_turtle_bwa_tk15 Single-end 90 bp RNAseq reads for tk15 developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_tk15.bam). tk15 RNASeq alignments 0 1 9335 2012-06-27 13:35:50 101214 2015-06-19 12:36:20 1132 1
615 chinese_softshell_turtle_bwa_tk17 Single-end 90 bp RNAseq reads for tk17 developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_tk17.bam). tk17 RNASeq alignments 0 1 9335 2012-06-27 13:36:27 101214 2015-06-19 12:36:20 1133 1
616 chinese_softshell_turtle_bwa_tk23 Single-end 90 bp RNAseq reads for tk23 developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_tk23.bam). tk23 RNASeq alignments 0 1 9335 2012-06-27 13:36:53 101214 2015-06-19 12:36:20 1134 1
617 chinese_softshell_turtle_bwa_tk7 Single-end 90 bp RNAseq reads for tk7 developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_tk7.bam). tk7 RNASeq alignments 0 1 9335 2012-06-27 13:37:14 101214 2015-06-19 12:36:20 1135 1
618 chinese_softshell_turtle_bwa_tk9 Single-end 90 bp RNAseq reads for tk9 developmental stage from Pelodiscus sinensis. Data were obtained from the RIKEN Institute and aligned to the PelSin1.0 assembly using BWA. Download this BAM file from the Ensembl FTP (file:pelodiscus_sinensis_pelsin1.0_tk9.bam). tk9 RNASeq alignments 0 1 9335 2012-06-27 13:37:35 101214 2015-06-19 12:36:20 1136 1
619 bgi_genes Gene predictions generated by the BGI using CuffLinks, GLEAN and genewise for Pelodiscus sinensis. BGI predictions 0 1 9335 2012-06-27 14:20:14 \N \N 57 1
620 flycatcher_bwa_2_liver Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from liver, from the same individual as was sequenced for genome assembly. Liver RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:13:15 101214 2015-06-19 12:36:20 92 1
621 flycatcher_bwa_2_kidney Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from kidney, from the same individual as was sequenced for genome assembly. Kidney RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:13:48 101214 2015-06-19 12:36:20 92 1
622 flycatcher_bwa_2_lung Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from lung, from the same individual as was sequenced for genome assembly. Lung RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:14:09 101214 2015-06-19 12:36:20 92 1
623 flycatcher_bwa_2_brain Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from brain, from the same individual as was sequenced for genome assembly. Brain RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:14:29 101214 2015-06-19 12:36:20 92 1
624 flycatcher_bwa_2_testis Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from testis, from the same individual as was sequenced for genome assembly. Testis RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:15:04 101214 2015-06-19 12:36:20 92 1
625 flycatcher_bwa_2_skin Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from skin, from the same individual as was sequenced for genome assembly. Skin RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:15:20 101214 2015-06-19 12:36:20 92 1
626 flycatcher_bwa_2_muscle Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from muscle, from the same individual as was sequenced for genome assembly. Muscle RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:15:36 101214 2015-06-19 12:36:20 92 1
627 flycatcher_bwa_1_liver Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from flycatcher liver. Liver RNASeq alignments from individual 1 0 0 5132 2012-07-04 22:16:20 101214 2015-06-19 12:36:20 92 1
628 flycatcher_bwa_1_kidney Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from flycatcher kidney. Kidney RNASeq alignments from individual 1 0 0 5132 2012-07-04 22:16:47 101214 2015-06-19 12:36:20 92 1
629 flycatcher_bwa_1_lung Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from flycatcher lung. Lung RNASeq alignments from individual 1 0 0 5132 2012-07-04 22:17:24 101214 2015-06-19 12:36:20 92 1
630 flycatcher_bwa_1_brain Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from flycatcher brain. Brain RNASeq alignments from individual 1 0 0 5132 2012-07-04 22:17:45 101214 2015-06-19 12:36:20 92 1
631 flycatcher_bwa_1_testis Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from flycatcher testis. Testis RNASeq alignments from individual 2 0 0 5132 2012-07-04 22:18:13 101214 2015-06-19 12:36:20 92 1
632 flycatcher_bwa_1_skin Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from flycatcher skin. Skin RNASeq alignments from individual 1 0 0 5132 2012-07-04 22:18:36 101214 2015-06-19 12:36:20 92 1
633 flycatcher_bwa_1_muscle Paired-end 100 bp RNAseq reads obtained from Ellegren et al (PMID:23103876) were aligned to the FicAlb_1.4 assembly using BWA. (See ERP001377 for data from the publication.) The data are from flycatcher muscle. Muscle RNASeq alignments from individual 1 0 0 5132 2012-07-04 22:20:14 101214 2015-06-19 12:36:20 92 1
634 codingdensity Density of coding genes, calculated by dividing the chromosome into 150 "bins" and counting the genes in each. (For very short chromosomes, e.g. MT, some genes contribute to multiple bins.) Coding genes (density) 0 1 97245 2012-07-26 12:12:41 105967 2019-05-01 10:59:17 \N 1
635 pseudogenedensity Density of pseudogenes, calculated by dividing the chromosome into 150 "bins" and counting the genes in each. (For very short chromosomes, e.g. MT, some genes contribute to multiple bins.) Pseudogenes (density) 0 1 97245 2012-07-26 12:13:48 105967 2019-05-01 10:57:49 \N 1
636 noncodingdensity Density of non-coding RNA genes, calculated by dividing the chromosome into 150 "bins" and counting the genes in each. (For very short chromosomes, e.g. MT, some genes contribute to multiple bins.) Non-coding genes (density) 0 1 97245 2012-07-26 12:14:13 105967 2019-05-01 10:58:33 \N 1
637 grc_alignment_import Mappings between alternate loci or patches and the primary assembly (imported from GRC). GRC alignment import 1 1 102717 2012-08-14 15:47:34 161 2016-02-17 18:09:38 102 1
638 est2genome_pig_havana Alignment of pig ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Pig EST (EST2genome) 1 1 9335 2012-08-21 16:19:10 \N \N 34 0
639 pig_cdna2genome Pig cDNAs from NCBI RefSeq and EMBL are aligned to the genome using Exonerate cdna2genome model. Pig Refseq/ENA cdna2genome 1 1 9335 2012-08-23 23:04:24 101214 2017-07-12 10:23:49 5 0
640 uniprot_teleost_fish Teleost fish proteins from the UniProtKB database, positioned on the genome through BLASTP of Genscan-predicted (vertebrate) peptides to UniProtKB proteins. Teleost fish UniProt proteins 1 1 104979 2012-08-29 09:15:30 101214 2020-01-02 15:41:37 \N 1
641 est2genome_pig Alignment of pig ESTs (expressed sequence tags) to the genome using the program Est2genome. ESTs are from dbEST Pig EST (EST2genome) 1 0 161 2012-08-29 12:40:53 \N \N 34 1
642 human_1kg_hapmap_phase_2 The map was generated using the HapMap Phase II data and human genome assembly NCBI35 using LDhat as described in the 2007 HapMap paper (Nature, 18th Sept 2007). The map was then converted from NCBI35 to GRCh37 coordinates and inspected for regions in which the genome assembly had be rearranged. See ftp://ftp.1000genomes.ebi.ac.uk/vol1/ftp/technical/working/20110106_recombination_hotspots/ HapMap Phase II genetic recombination map 0 1 103988 2012-08-29 15:57:03 105967 2019-05-01 14:56:28 \N 1
643 repeatmask_platyfish_custom RepeatMasker was used to find repeats using a platyfish repeat library provided by Domitille Chalopin. This track usually shows repeats alone (not low-complexity sequences). Repeats (Platyfish) 1 1 5132 2012-08-29 21:05:29 \N \N \N 1
644 repeatmask_nospecies RepeatMasker is used to find repeats and low-complexity sequences. This track usually shows repeats alone (not low-complexity sequences). Repeats (general) 1 1 104979 2012-09-03 11:00:07 \N \N \N 1
646 orangutan_brain_prefrontal_cortex_rnaseq Models built using RNA-Seq data from orangutan prefrontal cortex. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). PFC RNA-Seq 0 1 29 2012-09-05 14:15:18 101214 2015-06-19 12:36:20 1031 1
647 orangutan_cerebellum_rnaseq Models built using RNA-Seq data from orangutan cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). cerebellum RNASeq 0 1 29 2012-09-05 14:17:54 101214 2015-06-19 12:36:20 1019 1
648 orangutan_kidney_rnaseq Models built using RNA-Seq data from orangutan kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Kidney RNASeq 0 1 29 2012-09-05 14:18:46 101214 2015-06-19 12:36:20 1023 1
649 orangutan_heart_rnaseq Models built using RNA-Seq data from orangutan heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Heart RNASeq 0 1 29 2012-09-05 14:19:33 101214 2015-06-19 12:36:20 1021 1
650 orangutan_liver_rnaseq Models built using RNA-Seq data from orangutan liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). liver RNASeq 0 1 29 2012-09-05 14:20:11 101214 2015-06-19 12:36:20 1025 1
651 orangutan_brain_prefrontal_cortex_introns Split read RNA-Seq data from orangutan prefrontal cortex. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). PFC RNA-Seq introns 0 1 29 2012-09-05 14:22:39 101214 2015-06-19 12:36:20 1030 1
652 orangutan_cerebellum_introns Split read RNA-Seq data from orangutan cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). cerebellum RNASeq introns 0 1 29 2012-09-05 14:23:31 101214 2015-06-19 12:36:20 1018 1
653 orangutan_heart_introns Split read RNA-Seq data from orangutan heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Heart RNASeq introns 0 1 29 2012-09-05 14:24:48 101214 2015-06-19 12:36:20 1020 1
654 orangutan_liver_introns Split read RNA-Seq data from orangutan liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Liver RNASeq introns 0 1 29 2012-09-05 14:25:22 101214 2015-06-19 12:36:20 1024 1
655 orangutan_bwa_brain_prefrontal_cortex BWA aligned RNA-Seq data from orangutan prefrontal cortex. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352).Download this BAM file from the Ensembl FTP PFC RNASeq alignments 0 1 29 2012-09-05 14:29:21 105967 2019-05-01 14:57:48 1032 1
656 orangutan_bwa_cerebellum BWA aligned RNA-Seq data from orangutan cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP cerebellum RNASeq alignments 0 1 29 2012-09-05 14:30:44 101214 2015-06-19 12:36:20 1013 1
657 orangutan_bwa_kidney BWA aligned RNA-Seq data from orangutan kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP kidney RNASeq alignments 0 1 29 2012-09-05 14:31:23 101214 2015-06-19 12:36:20 1014 1
658 orangutan_bwa_heart BWA aligned RNA-Seq data from orangutan heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP heart RNASeq alignments 0 1 29 2012-09-05 14:32:04 101214 2015-06-19 12:36:20 1033 1
659 orangutan_bwa_liver BWA aligned RNA-Seq data from orangutan liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP liver RNASeq alignments 0 1 29 2012-09-05 14:32:39 101214 2015-06-19 12:36:20 1015 1
660 orangutan_merged_rnaseq Models built using RNA-Seq data from pooled orangutan tissues. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Pooled RNASeq 0 1 29 2012-09-05 14:33:40 101214 2015-06-19 12:36:20 1027 1
661 orangutan_merged_introns Split read RNA-Seq data from pooled orangutan tissues. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Pooled RNASeq introns 0 1 29 2012-09-05 14:34:31 101214 2015-06-19 12:36:20 1026 1
662 orangutan_bwa_merged BWA aligned RNA-Seq data from pooled orangutan tissues. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP Pooled RNASeq alignments 0 1 29 2012-09-05 14:35:09 101214 2015-06-19 12:36:20 1016 1
663 orangutan_kidney_introns Split read RNA-Seq data from orangutan kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Kidney RNASeq introns 0 1 29 2012-09-06 10:37:48 101214 2015-06-19 12:36:20 1022 1
664 opossum_brain_sw_rnaseq Models built using RNA-Seq data from opossum brain. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Brain SIB RNASeq 0 1 29 2012-09-06 11:42:33 101214 2015-06-19 12:36:20 320 1
665 opossum_cerebellum_sw_rnaseq Models built using RNA-Seq data from opossum cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Cerebellum SIB RNASeq 0 1 29 2012-09-06 11:43:34 101214 2015-06-19 12:36:20 319 1
666 opossum_heart_sw_rnaseq Models built using RNA-Seq data from opossum heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Heart SIB RNASeq 0 1 29 2012-09-06 11:43:34 101214 2015-06-19 12:36:20 323 1
667 opossum_kidney_sw_rnaseq Models built using RNA-Seq data from opossum kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Kidney SIB RNASeq 0 1 29 2012-09-06 11:43:34 101214 2015-06-19 12:36:20 335 1
668 opossum_liver_sw_rnaseq Models built using RNA-Seq data from opossum liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Liver SIB RNASeq 0 1 29 2012-09-06 11:43:34 101214 2015-06-19 12:36:20 324 1
669 opossum_testis_sw_rnaseq Models built using RNA-Seq data from opossum testis. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Testis SIB RNASeq 0 1 29 2012-09-06 11:43:35 101214 2015-06-19 12:36:20 328 1
670 opossum_brain_sw_introns Split read RNA-Seq data from opossum brain. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Brain SIB RNASeq introns 0 1 29 2012-09-06 11:46:02 101214 2015-06-19 12:36:20 292 1
671 opossum_cerebellum_sw_introns Split read RNA-Seq data from opossum cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Cerebellum SIB RNASeq introns 0 1 29 2012-09-06 11:46:13 101214 2015-06-19 12:36:20 291 1
672 opossum_heart_sw_introns Split read RNA-Seq data from opossum heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Heart SIB RNASeq introns 0 1 29 2012-09-06 11:46:13 101214 2015-06-19 12:36:20 295 1
673 opossum_kidney_sw_introns Split read RNA-Seq data from opossum kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Kidney SIB RNASeq introns 0 1 29 2012-09-06 11:46:13 101214 2015-06-19 12:36:20 333 1
674 opossum_liver_sw_introns Split read RNA-Seq data from opossum liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Liver SIB RNASeq introns 0 1 29 2012-09-06 11:46:13 101214 2015-06-19 12:36:20 296 1
675 opossum_testis_sw_introns Split read RNA-Seq data from opossum testis. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Testis SIB RNASeq introns 0 1 29 2012-09-06 11:46:13 101214 2015-06-19 12:36:20 300 1
676 opossum_brain_sw_bwa BWA aligned RNA-Seq data from opossum brain.Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352) .Download this BAM file from the Ensembl FTP. Brain SIB RNASeq alignments 0 1 29 2012-09-06 11:48:15 101214 2015-06-19 12:36:20 306 1
677 opossum_cerebellum_sw_bwa BWA aligned RNA-Seq data from opossum cerebellum.Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352) .Download this BAM file from the Ensembl FTP. Cerebellum SIB RNASeq alignments 0 1 29 2012-09-06 11:48:25 101214 2015-06-19 12:36:20 305 1
678 opossum_heart_sw_bwa BWA aligned RNA-Seq data from opossum heart.Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352) .Download this BAM file from the Ensembl FTP. Heart SIB RNASeq alignments 0 1 29 2012-09-06 11:48:26 101214 2015-06-19 12:36:20 309 1
679 opossum_kidney_sw_bwa BWA aligned RNA-Seq data from opossum kidney.Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352) .Download this BAM file from the Ensembl FTP. Kidney SIB RNASeq alignments 0 1 29 2012-09-06 11:48:26 101214 2015-06-19 12:36:20 334 1
680 opossum_liver_sw_bwa BWA aligned RNA-Seq data from opossum liver.Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352) .Download this BAM file from the Ensembl FTP. Liver SIB RNASeq alignments 0 1 29 2012-09-06 11:48:26 101214 2015-06-19 12:36:20 310 1
681 opossum_testis_sw_bwa BWA aligned RNA-Seq data from opossum testis.Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352) .Download this BAM file from the Ensembl FTP. Testis SIB RNASeq alignments 0 1 29 2012-09-06 11:48:26 101214 2015-06-19 12:36:20 314 1
682 opossum_5_day_embryos_bi_bwa BWA aligned RNA-Seq data from opossum 5 day embryos.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP. 5DE BI RNASeq alignments 0 1 29 2012-09-06 12:13:27 101214 2015-06-19 12:36:20 317 1
683 opossum_blood_bi_bwa BWA aligned RNA-Seq data from opossum blood.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335264.. Blood BI RNASeq alignments 0 1 29 2012-09-06 12:14:22 101214 2015-06-19 12:36:20 307 1
684 opossum_brain_bi_bwa BWA aligned RNA-Seq data from opossum brain.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335256. Brain BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 306 1
685 opossum_heart_bi_bwa BWA aligned RNA-Seq data from opossum heart.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335259. Heart BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 309 1
686 opossum_kidney_bi_bwa BWA aligned RNA-Seq data from opossum kidney.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335265. Kidney BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 334 1
687 opossum_liver_bi_bwa BWA aligned RNA-Seq data from opossum liver.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335260. Liver BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 310 1
688 opossum_lung_bi_bwa BWA aligned RNA-Seq data from opossum lung.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335262. Lung BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 311 1
689 opossum_ovary_bi_bwa BWA aligned RNA-Seq data from opossum ovary.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335263. Ovary BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 312 1
690 opossum_skeletal_muscle_bi_bwa BWA aligned RNA-Seq data from opossum skeletal muscle.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335261. Muscle BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 315 1
691 opossum_testis_bi_bwa BWA aligned RNA-Seq data from opossum testis.Data were obtained from the Broad Institute .Download this BAM file from the Ensembl FTP or see SRS335257. Testis BI RNASeq alignments 0 1 29 2012-09-06 12:14:23 101214 2015-06-19 12:36:20 314 1
692 opossum_5_day_embryos_bi_rnaseq Models built using RNA-Seq data from opossum 5 day embryos. Data were obtained from the Broad Institute 5DE BI RNASeq 0 1 29 2012-09-06 12:16:06 101214 2015-06-19 12:36:20 331 1
693 opossum_blood_bi_rnaseq Models built using RNA-Seq data from opossum blood. Data were obtained from the Broad Institute Blood BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 321 1
694 opossum_brain_bi_rnaseq Models built using RNA-Seq data from opossum brain. Data were obtained from the Broad Institute Brain BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 320 1
695 opossum_heart_bi_rnaseq Models built using RNA-Seq data from opossum heart. Data were obtained from the Broad Institute Heart BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 323 1
696 opossum_kidney_bi_rnaseq Models built using RNA-Seq data from opossum kidney. Data were obtained from the Broad Institute Kidney BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 335 1
697 opossum_liver_bi_rnaseq Models built using RNA-Seq data from opossum liver. Data were obtained from the Broad Institute Liver BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 324 1
698 opossum_lung_bi_rnaseq Models built using RNA-Seq data from opossum lung. Data were obtained from the Broad Institute Lung BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 325 1
699 opossum_ovary_bi_rnaseq Models built using RNA-Seq data from opossum ovary. Data were obtained from the Broad Institute Ovary BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 326 1
700 opossum_skeletal_muscle_bi_rnaseq Models built using RNA-Seq data from opossum skeletal muscle. Data were obtained from the Broad Institute Muscle BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 329 1
701 opossum_testis_bi_rnaseq Models built using RNA-Seq data from opossum testis. Data were obtained from the Broad Institute Testis BI RNASeq 0 1 29 2012-09-06 12:16:23 101214 2015-06-19 12:36:20 328 1
702 opossum_5_day_embryos_bi_introns Split read RNA-Seq data from opossum 5 day embyos.Data were obtained from the Broad Institute 5DE BI RNASeq introns 0 1 29 2012-09-06 12:16:36 101214 2015-06-19 12:36:20 303 1
703 opossum_blood_bi_introns Split read RNA-Seq data from opossum blood.Data were obtained from the Broad Institute Blood BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 293 1
704 opossum_brain_bi_introns Split read RNA-Seq data from opossum brain.Data were obtained from the Broad Institute Brain BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 292 1
705 opossum_heart_bi_introns Split read RNA-Seq data from opossum heart.Data were obtained from the Broad Institute Heart BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 295 1
706 opossum_kidney_bi_introns Split read RNA-Seq data from opossum kidney.Data were obtained from the Broad Institute Kidney BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 333 1
707 opossum_liver_bi_introns Split read RNA-Seq data from opossum liver.Data were obtained from the Broad Institute Liver BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 296 1
708 opossum_lung_bi_introns Split read RNA-Seq data from opossum lung.Data were obtained from the Broad Institute Lung BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 297 1
709 opossum_ovary_bi_introns Split read RNA-Seq data from opossum ovary.Data were obtained from the Broad Institute Ovary BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 298 1
710 opossum_skeletal_muscle_bi_introns Split read RNA-Seq data from opossum skeletal muscle.Data were obtained from the Broad Institute Muscle BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 301 1
711 opossum_testis_bi_introns Split read RNA-Seq data from opossum testis.Data were obtained from the Broad Institute Testis BI RNASeq introns 0 1 29 2012-09-06 12:16:44 101214 2015-06-19 12:36:20 300 1
712 opossum_merged_rnaseq Models built using RNA-Seq data from opossum pooled tissues. Data provided by Broad Institute and Henrik Kaessmann (University of Lausanne, PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352))). Pooled RNASeq 0 1 29 2012-09-06 11:24:04 101214 2015-06-19 12:36:20 290 1
713 opossum_merged_introns Split read RNA-Seq data from opossum pooled tissues. Data provided by Broad Institute and Henrik Kaessmann (University of Lausanne, PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352)). Pooled RNASeq introns 0 1 29 2012-09-06 11:25:52 101214 2015-06-19 12:36:20 288 1
714 opossum_merged_bwa BWA aligned RNA-Seq data RNA-Seq data from opossum pooled tissues. Data provided by Broad Institute and Henrik Kaessmann (University of Lausanne, PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352))). Pooled RNASeq alignments 0 1 29 2012-09-06 11:26:45 101214 2015-06-19 12:36:20 289 1
715 platypus_bwa_brain BWA aligned RNA-Seq data from platypus brain. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352).Download this BAM file from the Ensembl FTP Brain RNASeq alignments 0 1 29 2012-09-06 13:45:38 101214 2015-06-19 13:04:35 1012 1
716 platypus_brain_introns Split read RNA-Seq data from platypus brain. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Brain RNASeq introns 0 1 29 2012-09-06 13:47:09 101214 2015-06-19 13:04:35 1010 1
717 platypus_brain_rnaseq Models built using RNA-Seq data from platypus brain. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Brain RNASeq 0 1 29 2012-09-06 13:47:09 101214 2015-06-19 13:04:35 1011 1
718 platypus_bwa_cerebellum BWA aligned RNA-Seq data from platypus cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP cerebellum RNASeq alignments 0 1 29 2012-09-06 13:48:11 101214 2015-06-19 13:04:35 1013 1
719 platypus_cerebellum_introns Split read RNA-Seq data from platypus cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). cerebellum RNASeq introns 0 1 29 2012-09-06 13:48:11 101214 2015-06-19 13:04:35 1018 1
720 platypus_cerebellum_rnaseq Models built using RNA-Seq data from platypus cerebellum. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). cerebellum RNASeq 0 1 29 2012-09-06 13:48:11 101214 2015-06-19 13:04:35 1019 1
721 platypus_bwa_heart BWA aligned RNA-Seq data from platypus heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP heart RNASeq alignments 0 1 29 2012-09-06 13:48:11 101214 2015-06-19 13:04:35 1033 1
722 platypus_heart_introns Split read RNA-Seq data from platypus heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Heart RNASeq introns 0 1 29 2012-09-06 13:48:11 101214 2015-06-19 13:04:35 1020 1
723 platypus_heart_rnaseq Models built using RNA-Seq data from platypus heart. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Heart RNASeq 0 1 29 2012-09-06 13:48:11 101214 2015-06-19 13:04:35 1021 1
724 platypus_bwa_kidney BWA aligned RNA-Seq data from platypus kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP kidney RNASeq alignments 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1014 1
725 platypus_kidney_introns Split read RNA-Seq data from platypus kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Kidney RNASeq introns 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1022 1
726 platypus_kidney_rnaseq Models built using RNA-Seq data from platypus kidney. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Kidney RNASeq 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1023 1
727 platypus_bwa_liver BWA aligned RNA-Seq data from platypus liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP liver RNASeq alignments 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1015 1
728 platypus_liver_introns Split read RNA-Seq data from platypus liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Liver RNASeq introns 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1024 1
729 platypus_liver_rnaseq Models built using RNA-Seq data from platypus liver. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). liver RNASeq 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1025 1
730 platypus_bwa_merged BWA aligned RNA-Seq data from pooled platypus tissues. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP Pooled RNASeq alignments 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1016 1
731 platypus_merged_introns Split read RNA-Seq data from pooled platypus tissues. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Pooled RNASeq introns 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1026 1
732 platypus_merged_rnaseq Models built using RNA-Seq data from pooled platypus tissues. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Pooled RNASeq 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1027 1
733 platypus_bwa_testis BWA aligned RNA-Seq data from platypus testis. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Download this BAM file from the Ensembl FTP testis RNASeq alignments 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1017 1
734 platypus_testis_introns Split read RNA-Seq data from platypus testis. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Testis RNASeq introns 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1028 1
735 platypus_testis_rnaseq Models built using RNA-Seq data from platypus testis. Data provided by Henrik Kaessmann (University of Lausanne). For more information about this experiment, please see PMID: 22012392. Data can be downloaded from ArrayExpress (E-GEOD-30352). Testis RNASeq 0 1 29 2012-09-06 13:48:12 101214 2015-06-19 13:04:35 1029 1
736 zfish_14dpf_bwa BWA aligned RNA-Seq data from zebrafish 14 days post fertilization embryos.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. 14dpf RNASeq alignments 0 1 29 2012-09-07 11:02:41 101214 2015-06-19 12:43:57 \N 1
737 zfish_1dpf_bwa BWA aligned RNA-Seq data from zebrafish 1 day post fertilization embryos.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. 1dpf RNASeq alignments 0 1 29 2012-09-07 11:03:15 101214 2015-06-19 12:43:57 \N 1
738 zfish_2cells_bwa BWA aligned RNA-Seq data from zebrafish 2 cell embryos.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. 2cell RNASeq alignments 0 1 29 2012-09-07 11:03:15 101214 2015-06-19 12:43:57 \N 1
739 zfish_2dpf_bwa BWA aligned RNA-Seq data from zebrafish 2 days post fertilization embryos.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. 2dpf RNASeq alignments 0 1 29 2012-09-07 11:03:15 101214 2015-06-19 12:43:57 \N 1
740 zfish_3dpf_bwa BWA aligned RNA-Seq data from zebrafish 3 days post fertilization embryos.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. 3dpf RNASeq alignments 0 1 29 2012-09-07 11:03:15 101214 2015-06-19 12:43:57 \N 1
741 zfish_5dpf_bwa BWA aligned RNA-Seq data from zebrafish 5 days post fertilization embryos.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. 5dpf RNASeq alignments 0 1 29 2012-09-07 11:03:15 101214 2015-06-19 12:43:57 \N 1
742 zfish_6hpf_bwa BWA aligned RNA-Seq data from zebrafish 6 days post fertilization embryos.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. 6hpf RNASeq alignments 0 1 29 2012-09-07 11:03:15 101214 2015-06-19 12:43:57 \N 1
743 zfish_female_body_bwa BWA aligned RNA-Seq data from zebrafish female body.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the Ensembl FTP. Female body RNASeq alignments 0 1 29 2012-09-07 11:03:15 101214 2015-06-19 12:43:57 \N 1
744 zfish_male_body_bwa BWA aligned RNA-Seq data from zebrafish male body.Data provided by Wellcome Trust Sanger Institute. For more information about this experiment, please see PMID:22798491 . Data can be downloaded from ArrayExpress (ERP000016) .Download this BAM file from the