XLOC_018132 (vps18)


Basic Information

Item Value
gene id XLOC_018132
gene name vps18
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007131.7
NCBI id CM002904.2
chromosome length 55201332
location 28354269 ~ 28361574 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00035739
CATGATATTCATCAGCTGACCCAAGACAGACATGCAACCAACACAGCTCGGTTTCTCAGATCTGTCATTCctttttcatttataaaaattCCCTTGGCgcgtaattttgttttattttacaccaATAGGGTGTCCATTATGTTTTATTGAGCACGCAAAGAGGACGTTGACAGTGACAGCTTGTGAACAGGACATTTAACGTTAGCTCGCATGCTAGCGTGCTATGGGTGGAAACAGCTGGTAGGGATACTGTACATCTTTACCTGCAATGTAAACACAGGTTCACTATTTGCTGTACATCGTCGTGTGAATATTTGATCATTTGCAATGGCATCTATTCTGGATCAATATGAAGATTCGCAGAACATCCGTCAACACAGTCGTATGTCCACGGCCAACATCGGCATCACTCATTCAGGGTTTGTAAATGTAAGATTGGAGGAAGAAAAACCCATTTTCACCAAGCAGCGCATCGATTTCTCTCCTCCCGAAAAAATCAACCAATTTTCGGTTTGCAACAATCAGTTATGCATGAGCTTGGGAAAAGACACCCTGCTGAGAATTGATCTCGGAAAACCTGATCAGCCAAATCAGATTGAATTGGGAAGAAAAGATGATAGCAAAGTacacagacttttcctagatccTACAGGGTCACATTTAGTCATCTGCCTCACTACAAATGAATGTGTGTACCTAAATAGAAACACTCAGAAGGTCCGAGGTCTGTCAAGGTGGAGAGGCCACTTGATTGAAAGCATAGGTTGGAACAAATTAATCGGCTCTGAGACCAACACTGGCCCCATTCTGGTCGGGACCAGCCAGGGAATCATCTTTGAAGCTGAGATCTCTGCCTCAGAGGGCAGTCTGTTCAACACCAACCCGGACCAGTACTTCAGACAGGTTCATTACCTCGAGGAGGATGGCAAGCCAGCTCCGGTTTGTTGCCTGGAGGTTGAACGTGGTTTGGAAACTAAATACTTTATCATTGCAACCACACGAAAACGGCTGTTCCAGTTTGTAGGAAAGCTGGCAGAAGGATCTGAGCAGCAGGGCTTCAGCTCCATCTTTGCCCAGAACCAGGATCTTCTACCCAGCTTCCAGGAATTTCCTGTCAATATGGGCTATAGTGAGATTACATTTTACACATCAAAGCTGCGTAGTCGCCCCAAGACCTTCGCCTGGATGATGGGGAATGGCGTTTTGTACGGGCAACTGGACTATGTGCGCCCCGACTCTTTACTCAGTGATGTTCAAGTGTGGGAATACACGCAAGACATTGATTTAAACTTCGTCAAACCCATCTCTATAGTCCTCACCCAGTTCCACTTCTTGCTCCTGCTCCCTGACCGTGTCCGAGGGATCTGCACCCTGAATGGGCAGGTTGTGCATGAAGATGTGTTTCCCGAAAAGTTCGGTACACTACAAAAGATGATCAAAGATCCCATAACAGGACTTGTGTGGATCTACACTGAGAAAGCAGTGTTTCGATATCACATCCAGAAAGAAGCACGGGACGTTTGGCAGATGTACATGAACATGAATAAGTTTGATCTGGCCAAAGAGTACTGCAAAGATCGACCAGAATGCTTAGACATGGTTCTCGCAAAAGAGGCAGAGCACTGCTTTCAAAACAAGCGCTACCTAGAGAGCGCCAAATGCTATGCGCTTACTCAAAATTACTTTGAGGAGATTGCGCTGAAGTTCATTGAGGCCAAGCAAGAGGAGGCCTTGAAAGAGTTTCTGATTAAAAAGCTGGTCAATCTCAAGCCCAGTGAGAAGACTCAGATCACCCTGCTGGTGACCTGGTTGACCGAACTCTATCTGAATCGGCTCGGTCAACTGGAGGCCGACGAAGGCAAGCAACATTTATTTCTGGAGACCCGTGAAGAGTTTCGTACCTTTCTTAAAAGCCCCAAACATAAAGATTGCTTCTACAACAATCGCAGCACCATCTACGACCTGCTCGCTAGTCATGGCGACGTGGACAACATGGTGTATTTCTCGGTCATCATGCAAGATTACGAGCGTGTCATTTCTCATTACTGCCAGCATGACGACTACAGCGCAGCTTTAGATGTTCTCTCCAAACACTGTGACGACAAGCTCTTCTACAAGTTCTCCCCAGTCCTCATGCAGCACATCCCCAAAAAGGTGGTCGATGCATGGATTCAGATGGGAAACCGGTTGGATCCGAAGAATCTGATCCCAGCGCTTGTGAACTACAGCCAGATGGGCAGCATGCAGCAGATAAATGAGACCATCCGGTACATGGAGTTCTGTGTGTATGAGCTGGACGTCAAAGAAGAGGCCATTCACAATTACCTACTCTCGCTTTATGCCAAACACAAGCCAGACGCTCTGTTGTGGTACCTCGAACAAGCCGGAACTCACGTCTCCGATATTCATTATGACTTGAAATATGCCTTGCGCCTTTGCTCCGAACATGGATACCTGCAGGCCTGCGTCTTGGTTTACAAGATTATGGAGCTGTATGAGGAAGCTGTGGATCTTGCTCTAAAAGTGGATGTGGATTTGGCCAAGTCTTGCGCCGACCTTCCAGAGGACGATGAGGAGTTAAGAAAGAAGCTGTGGCTGAAGATCGCTCGCCATGTAGTGCAGGAGGAGAAGGATGTCAAGAAGGCTATGAACTGCCTGTCCAGTTGCAACCTGCTTAAGATCGAAGACATCTTGCCTTTCTTTCCAGACTTTGTCACAATAGACCACTTCAAGGAGGCGATATGCAGCTCTTTGGAAGAGTACAACAAACACATCGAAGAGCTGAAACAAGAAATGGAGGAGGCCACAGAAAGTGCCAAACGCATCCGCGAAGACATCCAAGAGATGAGGAACAAGTATGGTGTGGTTGAGTCTCAGGAAAAATGCGCTACTTGTGATTTCCCCCTGCTCAACCGACCTTTCTATCTTTTCCTGTGCGGACACATGTTCCATTATGATTGCCTCCTGCAGGAAGTCATTCCTCACCTCTCTGTCTATAAGCAGAATAAATTGGATGAGCTACAGAAGAAACTGGCAGCGACCACGCAGACCACCAAGGCTCGGCACAAGCCTAGAGAGGAGGACACGGTCAGCTTAGGCAAAGGCCAGGGAAGCAGGGAGCAGATCAAATCAGACATTGATGATATTATAGCGTGCGAGTGCGTGTACTGCGGTGAGCTGATGATCAAGTCCATTGACAAGCCGTTCATAGATCCGCAGAAGTTTGATCAAGAGATGTCCAGCTGGCTCTGAAGGAGAGACGCATCTGCTTGAGCTgcacaacacatttattataCACATTGTACATTTGCTTAACATGTAACCGGATGTGCATTGTAAAATTTTTACATTCTCgattaatgaacatttatatgatTTTGTCAACAAATATGCACTGTACAAGTGTTCTTCGTTGATTTTATGTGTTTGCTTCCTTAGATcaaatttaaaaatgcacttGTTTTCATTTTGCATAAAAGTAATGCGAATAATATCTTTTTTATGTGCACAGCTAAGAAGAATAAATGATTGCCTTTTGACTgga

Function

symbol description
vps18 Predicted to enable protein-macromolecule adaptor activity. Acts upstream of or within several processes, including apical protein localization; endosome to pigment granule transport; and notochord cell vacuolation. Predicted to be located in late endosome membrane and lysosomal membrane. Predicted to be part of HOPS complex. Predicted to be active in endosome. Used to study cholestasis. Orthologous to human VPS18 (VPS18 core subunit of CORVET and HOPS complexes).

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0006904 vesicle docking involved in exocytosis biological_process
GO:0048757 pigment granule maturation biological_process
GO:0035542 regulation of SNARE complex assembly biological_process
GO:0007275 multicellular organism development biological_process
GO:0045176 apical protein localization biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0007032 endosome organization biological_process
GO:0007033 vacuole organization biological_process
GO:0007040 lysosome organization biological_process
GO:0015031 protein transport biological_process
GO:0007634 optokinetic behavior biological_process
GO:0043485 endosome to pigment granule transport biological_process
GO:0008333 endosome to lysosome transport biological_process
GO:0015721 bile acid and bile salt transport biological_process
GO:0048069 eye pigmentation biological_process
GO:0060036 notochord cell vacuolation biological_process
GO:0005764 lysosome cellular_component
GO:0005765 lysosomal membrane cellular_component
GO:0005768 endosome cellular_component
GO:0031902 late endosome membrane cellular_component
GO:0030897 HOPS complex cellular_component
GO:0016020 membrane cellular_component
GO:0030674 protein-macromolecule adaptor activity molecular_function
GO:0046872 metal ion binding molecular_function

KEGG:

id description
ko04138 Autophagy - yeast
ko05132 Salmonella infection
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-020419-33 Predicted to enable protein-macromolecule adaptor activity. Acts upstream of or within several processes, including apical protein localization; endosome to pigment granule transport; and notochord cell vacuolation. Predicted to be located in late endosome membrane and lysosomal membrane. Predicted to be part of HOPS complex. Predicted to be active in endosome. Used to study cholestasis. Orthologous to human VPS18 (VPS18 core subunit of CORVET and HOPS complexes).

Ensembl:

ensembl_id ENSDARG00000070433

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00035739 True 3544 mRNA 0.46 5 28354269 28361574

Neighbor

gene id symbol gene type direction distance location
XLOC_018131 ino80 coding downstream 1917 28266327 ~ 28352352 (-)
XLOC_018130 NA coding downstream 120677 28233277 ~ 28233592 (-)
XLOC_018129 NA coding downstream 190117 28114764 ~ 28164152 (-)
XLOC_018128 syndig1l coding downstream 489305 27822044 ~ 27864964 (-)
XLOC_018127 zgc:153157 coding downstream 620478 27732578 ~ 27733791 (-)
XLOC_018133 pigh coding upstream 38019 28399593 ~ 28404443 (-)
XLOC_018134 wdr21 coding upstream 56910 28418484 ~ 28434078 (-)
XLOC_018135 rgs6 coding upstream 150367 28511941 ~ 28642061 (-)
XLOC_018136 BX569801.1 coding upstream 249698 28611272 ~ 28612322 (-)
XLOC_018137 sipa1l1 coding upstream 288451 28650025 ~ 28768114 (-)
XLOC_017928 CU539064.1 misc downstream 18300568 10053405 ~ 10053701 (-)
XLOC_018118 BX248515.3 non-coding downstream 1300049 27054095 ~ 27054220 (-)
XLOC_018116 BX248515.2 non-coding downstream 1391513 26959533 ~ 26962756 (-)
XLOC_018112 NA non-coding downstream 1645743 26631070 ~ 26708526 (-)
XLOC_018140 NA non-coding upstream 498868 28860442 ~ 28863882 (-)
XLOC_018147 NA non-coding upstream 1065364 29426938 ~ 29429462 (-)
XLOC_018151 BX248136.1 non-coding upstream 1133726 29495300 ~ 29495435 (-)
XLOC_018156 NA non-coding upstream 1326061 29687635 ~ 29691465 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000325_06316580_06324054 VPS18 coding CI01000325 null 6316379 ~ 6324054 (-)
bowfin (Amia calva) AMCG00000220 vps18,LOC106571062,LOC107739368 coding CM030141.1 CM030141.1 7690570 ~ 7697131 (+)