# HISTORY 07 May 2016: Updated by: TOUCHUP-v1.18 18 Mar 2016: Updated by: TOUCHUP-v1.14 27 Mar 2016: Updated by: TOUCHUP-v1.15 # molecular_function # cellular_component 20140827: Eukaryota_PTN000633927 is found in early endosome (GO:0005769) 20140827: Eukaryota_PTN000633927 is found in Golgi apparatus (GO:0005794) 20140827: Eukaryota_PTN000633927 is found in phagocytic vesicle (GO:0045335) 20140905: Bilateria_PTN000756399 is found in insulin-responsive compartment (GO:0032593) 20140827: Bilateria_PTN000756399 is found in Golgi apparatus (GO:0005794) 20140908: Eukaryota_PTN000635700 is found in late endosome (GO:0005770) 20140904: Eukaryota_PTN000635700 is found in phagocytic vesicle (GO:0045335) 20140908: Eukaryota_PTN000635700 is found in lysosome (GO:0005764) 20140827: Eukaryota_PTN000635700 is found in vacuolar membrane (GO:0005774) 20140827: Dikarya_PTN001178554 is found in fungal-type vacuole membrane (GO:0000329) 20140908: Eumetazoa_PTN001178841 is found in trans-Golgi network (GO:0005802) 20140904: Eukaryota_PTN000634504 is found in early endosome (GO:0005769) 20140908: Euteleostomi_PTN000634606 is found in trans-Golgi network membrane (GO:0032588) 20140908: Eukaryota_PTN000635999 is found in Golgi apparatus (GO:0005794) 20140827: Eukaryota_PTN000635999 is found in endosome (GO:0005768) 20150204: Ascomycota_PTN000634389 is found in spindle pole body (GO:0005816) 20140908: Eumetazoa_PTN001178482 is found in secretory granule (GO:0030141) 20140904: Eumetazoa_PTN001178482 is found in melanosome (GO:0042470) 20140827: Euarchontoglires_PTN000635326 is found in Golgi apparatus (GO:0005794) 20140905: Opisthokonta_PTN000635134 is found in plasma membrane (GO:0005886) 20140827: Opisthokonta_PTN000635134 is found in endosome (GO:0005768) 20140905: Opisthokonta_PTN001530779 is found in synaptic vesicle (GO:0008021) 20140905: Eumetazoa_PTN001179173 is found in trans-Golgi network transport vesicle (GO:0030140) 20140827: Eukaryota_PTN000634566 is found in endosome (GO:0005768) 20140908: Eukaryota_PTN000634566 is found in endocytic vesicle (GO:0030139) 20140908: Eukaryota_PTN000634601 is found in early endosome (GO:0005769) 20140908: Eukaryota_PTN000634601 is found in plasma membrane (GO:0005886) 20140827: Fungi_PTN001179517 is found in late endosome (GO:0005770) 20140908: Amniota_PTN000634696 is found in recycling endosome membrane (GO:0055038) 20140908: Eukaryota_PTN000636041 is found in trans-Golgi network (GO:0005802) 20140908: Eukaryota_PTN000636041 is found in melanosome (GO:0042470) 20140905: Eukaryota_PTN000636119 is found in mitochondrion (GO:0005739) 20140908: Eukaryota_PTN000636003 is found in autophagosome (GO:0005776) 20140908: Eukaryota_PTN000636003 is found in endosome membrane (GO:0010008) 20140908: Eukaryota_PTN000634568 is found in autophagosome (GO:0005776) 20140827: Eukaryota_PTN000633980 is found in endosome (GO:0005768) 20140904: Eukaryota_PTN000633981 is found in recycling endosome (GO:0055037) 20140908: Eukaryota_PTN001179054 is found in Golgi apparatus (GO:0005794) 20140905: Eukaryota_PTN000634841 is found in endoplasmic reticulum membrane (GO:0005789) 20140905: Eukaryota_PTN000634841 is found in Golgi membrane (GO:0000139) 20140908: Eumetazoa_PTN001178320 is found in endosome membrane (GO:0010008) 20140908: Eumetazoa_PTN001178320 is found in plasma membrane (GO:0005886) 20140827: Eukaryota_PTN001178908 is found in Golgi apparatus (GO:0005794) 20140905: Eukaryota_PTN001530980 is found in endosome (GO:0005768) 20140905: Chordata_PTN001179259 is found in insulin-responsive compartment (GO:0032593) 20140908: Euteleostomi_PTN000634629 is found in early endosome (GO:0005769) 20140908: Amniota_PTN000634696 is NOT found in endocytic vesicle (GO:0030139) 20140905: Eumetazoa_PTN001178320 is NOT found in endoplasmic reticulum membrane (GO:0005789) 20140905: Eumetazoa_PTN001178320 is NOT found in Golgi membrane (GO:0000139) # biological_process 20140827: Eukaryota_PTN000633927 participates in phagolysosome assembly involved in apoptotic cell clearance (GO:0090387) 20140827: Eukaryota_PTN000633927 participates in Golgi to endosome transport (GO:0006895) 20140905: Bilateria_PTN000756399 participates in cellular response to insulin stimulus (GO:0032869) 20140827: Eukaryota_PTN000635700 participates in phagosome-lysosome fusion (GO:0090385) 20140827: Dikarya_PTN001178554 participates in regulation of vacuole fusion, non-autophagic (GO:0032889) 20140904: Opisthokonta_PTN001530368 participates in endosome to lysosome transport (GO:0008333) 20140904: Eukaryota_PTN000634504 participates in regulation of endocytosis (GO:0030100) 20140908: Euteleostomi_PTN000634606 participates in Golgi to plasma membrane protein transport (GO:0043001) 20140908: Eumetazoa_PTN001178308 participates in regulation of autophagosome assembly (GO:2000785) 20150204: Ascomycota_PTN000634389 participates in regulation of exit from mitosis (GO:0007096) 20140904: Eumetazoa_PTN001178482 participates in melanosome transport (GO:0032402) 20140904: Eumetazoa_PTN001178482 participates in positive regulation of exocytosis (GO:0045921) 20140908: Eukaryota_PTN000635132 participates in protein secretion (GO:0009306) 20140908: Eukaryota_PTN000635132 participates in vesicle docking involved in exocytosis (GO:0006904) 20140905: Opisthokonta_PTN000635134 participates in protein localization to plasma membrane (GO:0072659) 20140905: Eumetazoa_PTN001179173 participates in Golgi vesicle fusion to target membrane (GO:0048210) 20140905: Eumetazoa_PTN001179173 participates in cellular response to insulin stimulus (GO:0032869) 20140908: Eukaryota_PTN000756441 participates in lipid particle organization (GO:0034389) 20140904: Opisthokonta_PTN001179601 participates in regulation of endocytosis (GO:0030100) 20140904: Euteleostomi_PTN000634664 participates in regulation of filopodium assembly (GO:0051489) 20140908: Amniota_PTN000634696 participates in endocytic recycling (GO:0032456) 20140908: Eukaryota_PTN000636041 participates in melanosome organization (GO:0032438) 20140905: Eukaryota_PTN001531012 participates in protein localization to membrane (GO:0072657) 20140905: Eumetazoa_PTN001179388 participates in retrograde transport, plasma membrane to Golgi (GO:0035526) 20140908: Eukaryota_PTN000636003 participates in autophagosome assembly (GO:0000045) 20140827: Eukaryota_PTN000633981 participates in exocytosis (GO:0006887) 20140827: node_PTN000633986 participates in melanosome transport (GO:0032402) 20140827: Euteleostomi_PTN000633987 participates in regulated exocytosis (GO:0045055) 20140827: Euteleostomi_PTN000633987 participates in constitutive secretory pathway (GO:0045054) 20140905: Eukaryota_PTN000634841 participates in ER to Golgi vesicle-mediated transport (GO:0006888) 20140905: Eumetazoa_PTN001178320 participates in endocytic recycling (GO:0032456) 20140908: Opisthokonta_PTN001178525 participates in retrograde transport, endosome to Golgi (GO:0042147) 20140905: Eukaryota_PTN001178908 participates in retrograde vesicle-mediated transport, Golgi to ER (GO:0006890) 20140905: Eukaryota_PTN001178908 participates in intra-Golgi vesicle-mediated transport (GO:0006891) 20140905: Eukaryota_PTN001178908 participates in retrograde transport, endosome to Golgi (GO:0042147) 20140905: Eukaryota_PTN001530980 participates in regulation of endocytosis (GO:0030100) 20140908: Euteleostomi_PTN000634629 participates in endocytosis (GO:0006897) # WARNINGS - THE FOLLOWING HAVE BEEN REMOVED FOR THE REASONS NOTED # NOTES Review: General: PMID: 21248164 Role of Rabs in neurotransmitter release: PMID: 18401709 MAF: The small GTPases Rab are key regulators of intracellular membrane trafficking, from the formation of transport vesicles to their fusion with membranes. It is really not obvious to make distinction between vacuole fusion, phagosome-lysosome fusion, phagosome maturation, phagolysosome assembly, vacuole organization, .... All this is more or less the same process. The same is true for exocytosis and secretory pathway. Disputes TO DO Dicty rab11A -> Does not have Rab guanyl-nucleotide exchange factor activity TO DO Primary annotations: - Rab8 is missing a CC annotation to 'GO:0032593 insulin-responsive compartment'. Corresponding BP has been annotated (cellular response to insulin stimulus (GO:0032869)) - Rab35 missing annotation to recycling endosome TO DO Other aspect to annotate for transitive annotation: - Cilium processes/cc - synaptic functions # REFERENCE Annotation inferences using phylogenetic trees The goal of the GO Reference Genome Project, described in PMID 19578431, is to provide accurate, complete and consistent GO annotations for all genes in twelve model organism genomes. To this end, GO curators are annotating evolutionary trees from the PANTHER database with GO terms describing molecular function, biological process and cellular component. GO terms based on experimental data from the scientific literature are used to annotate ancestral genes in the phylogenetic tree by sequence similarity (ISS), and unannotated descendants of these ancestral genes are inferred to have inherited these same GO annotations by descent. The annotations are done using a tool called PAINT (Phylogenetic Annotation and INference Tool).