vps18 (vps18,LOC107739368,LOC107602125,LOC107659178,LOC107668247)


Basic Information

Item Value
gene id vps18
gene name vps18,LOC107739368,LOC107602125,LOC107659178,LOC107668247
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035899.1
NCBI id CM008302.1
chromosome length 74127438
location 56759706 ~ 56765799 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_007231507.3
GGTACACCCAGTCACATGATTTTGGTCACCTGATTCTGAGGAGCAGCACAACGTTAGTAGCTAGATCTCCGGGAAAACAGCTGTTTTGAGTGTTTATAGTTCGTCTTCACGTCTTTAATTCGGCTCAAATGAGACTTTATGTTGGTGTTTTTCGCTCGCAGGAGACTGAAAGCGTTAGATAAGCTAATGAAGCCACGGGTAGCAGTGTCAGCTGGCCGTCCGCTGGTCTGCTAGCTATAACACTGACAGCGGCTAATGCAGCTAGCGCTAGTTAGCTGTAGCTTTGAGTCCTGTTAACTCCAGCCTTTAGGCTCACCGGGGAGTTTAGTCGTTTTTAGAAGGAATATTCATCCTTGACTCACTTAAACATATAGCTGGTTATAATGGCATCCATTCTGGACGAGTACGAAGACTCGCAGATCATCCGCCACCCTGTCCAGACCTCGCGCATGTCTGCGTCCAACATGATCGGGATCACTCATTCAGGGTTTGTGAACGTGCGGCTGGAGGAAGAGAAGCCCATCTTCAACAAGCAGCGGATTGACTTCTCACCTCCTGAAAAGATAAACCATTTCGCCGTGTGCAACAACCAGCTGTGCATGAGCCTGGGGAGGGACACCCTTCTGAGgaTCGATCTTGGAAAACCAGATCAGCCAAACCAGATTGAACTGGGGAGGAAGGATGATAGTAAAGTGCACAAGTTATTTCTGGACCCGACAGGGTCTCACTTGGTAATTAGTCTGACCACAAACGAGTGTGTTTACTTAAACAGAAACACCCAAAAGGTTCGCAGTCTCTCCCGATGGAGGGGACACCTAATAGAGAGCGTTGGCTGGAATAAGCTGATAGGCACAGAGAGCAATACTGGGCCAATTCTGGTTGGAACCAGCCAAGGAATCATCTTTGAAGCTGAAATATCTGCTTCAGAGGGAAGCCTGTTCAACACTAACCCAGACCAATACTTCAGGCAAGTCCATTCCTTGGAGGAGGATGGCAAACCGGCACCTGTCTGTTGCCTTGAAGTGGAACGTGGCATTGAATCAAAGTACTTCATCATTGCGACCACTCGCAAGCGCCTCTTTCAGTTTGTGGGCAAGTTAGCAGAAGGATCTGAGCAGCAGGGCTTTAGCTCCATCTTTGCTCAGAATCAGGATCTCCTACCTAGCTTTCAGGAGTTTCCTGTTAATATGGGCTATAGTGAGATTGCTTTCTACACCTCAAAGCTTCGTCAGTGCCCCAAGTCCTTTGCCTGGATGATGGGCAATGGGGTTTTGTATGGCCAGTTGGACTATGTGAGGCCTGACTCTCTTCTTAGTGATGTGCAGGTGTGGGAATACACTCCAGATATTGACTTCAGTTTTAACAAGCCCATCTCCATCGTGCTCACCCAGTTCCATTTCCTTCTTTTGCTGCCTGACCGTGTCAAGGCTATTTGTACACTAAACGGGCAAGTGGTGTATGAAGATGTGTTCCCAGACAAATTtggtgcactgaaaaaaatgatcaaagaTCCGATTGGTGGGCTGGTGTGGATCTACACAGAGAAAGCTGTCTTTCGGTATCACATTCAAAAGGAATCCAGAGACGTCTGGCAGATGTACATGAGCATGAACAAATTTGACCTGGCCAAAGAGTATTGCAAGGATCGGCCGGAGTGCATGGATATGGTATTGGCCAGGGAGGCAGAGCACTGCTTCCAAAACAAACGTTATCTTGAGAGCGCCAAGTGTTACGCTCTCACACAGAACTACTTTGAAGAGATCGCCTTGAAGTTTATTGAAGCCAAACAGGAGGAAGCCCTCAAGGAATTTCTGCTGAAGAAGTTGGGTAACCTCAAATCTTCTGAGAAGACCCAGATCACCCTTTTGGTTACCTGGTTAACTGAGCTGTACCTGAACCGACTTGGACAACTGGAAGTCGATGAGAGTAAGAGCAAACAATTCGAGGAAACCCGGGAGGAGTTCCGCGATTTTCTCTCCCACACAAAGTACAAAGAATTCTTCTTCAACAATCGCAGCACCATCTATGATCTTCTGGCCAGCCATGGCAATGTGGATGATATGGTGTATTTCTCTGTTATAATGCATGACTATGAGAGGGTCATCTCTCACCACTGCCAGCATGACGACTACAGTGCAGCTCTCGAGGTGCTCTCAAAGCACTGTGATGAAAAACTTTTCTACAAGTTTTCCCCGGTCCTCATGCAGCACATTCCTAAAAAAGTGGTGGATGCCTGGATAAAAATGGGAAAACGACTGGACCCTAAGAAACTGATCCCAGCTCTAGTGAACTACAGTCAGATTGGCAGCACCCAGCAGATCTGTGAGACAATCCGGTACATGGAGTTCTGTGTGTATCAGCTGGATGTGCAGGATGAGGCCATCCATAATTATCTGCTTTCACTTTATGCCAAATACAAGTCTGATTCTTTGCTGTGGTATCTCGAGCAGGCAGGTACTCATGCCTCCGAAATCAAGTATGACTTGAAATATGCCCTCCGCCTTTGTGCTGAACATGGCTATCTCCAGGCTTGTGTTTTGGTTTACAAGATAATGGAGCTGTATGAAGAAGCTGTGGATCTAGCCTTACaaGTTGATGTTGATTTGGCCAAGTCTTGTGCCGACCTTCCAGAGGATGACGAGGAGCTAAGAAAGAAGCTGTGGCTGAAAATTGCCCGCCACGTTGTTCAAGAAGAGAAGGACGTAAAGAAGGCCATGAACTGTTTATCTAGTTGCAACCTGCTGAAGATTGAGGACATCTTGCCTTTCTTTCCAGACTTTGTCACAATTGACCACTTCAAGGAGGCCATTTGTGGCTCTTTGGAAGAGTATAACCAGCACATCGATGAGCTGAAACAAGAAATGGAAGAGGCCACAGAGAGCGCCAAGCGCATACGTGAAGACATCCAGGAAATGAGAAACAAATACGGGGTGGTGGAATCTCAAGAGAAATGTGCTACCTGCGACTTTCCCTTGCTTAACAGGCCCTTCTATCTCTTCCTGTGTGGACACATGTTTCATTATGACTGTCTTTTACAGGAAGTCACCCCTCACTTTTCTACCTACAAGCAAAACAAGTTAGATGAACTCCAGAAAAAGCTTGCTGCAACCACGCAGACCACCAAGTCCCGTCACAGGCCAAAAGAGGAGGACACGGTCAGCCTAGGAAAAGGCCAGGGTAGCAGAGAGCAGATCAAGTCTGATATTGATGACATCATTGCTTCTGAGTGTGCCTACTGTGGTGAGCTGATGATCAAATCTATTGATAAGCCCTTTATTGATCCACAAAAGTTTGAGGAGGAAAGGTCTAGCTGGCTCTAAGCTTAAGACTTGTGTAATAAGCAAAAGTACTCACTTACCACTTTTAAAGTGAGAAAATAGCTGCAAGTACGTGCCTCATGTATAGCTCTCAGAGAACACTTATGCTTCaagaataaatatgtaaatgtaaccATTTATGCATCAATATTTCAGTGCTAACaaaatgtttgtgtatgtgttgcTAAATTAATGTATATCAGTATTCCTGTATGTGATGTGATGATCTTAATAAACGCAGGATTTTTTCAACTA

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).

NR:

description
vacuolar protein sorting-associated protein 18 homolog

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0045176 apical protein localization biological_process
GO:0016192 vesicle-mediated 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:0005765 lysosomal membrane cellular_component
GO:0031902 late endosome membrane cellular_component
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K20181 VPS18, PEP3; vacuolar protein sorting-associated protein 18

RNA

RNA id representative length rna type GC content exon number start site end site
XM_007231507.3 True 3572 mRNA 0.46 5 56759706 56765799

Neighbor

gene id symbol gene type direction distance location
pigh pigh coding upstream 28368 56724380 ~ 56731338 (+)
LOC103032052 rgs6,LOC108424512,LOC108257637,LOC107602058,LOC107659172,LOC107721319 coding upstream 124213 56486500 ~ 56635493 (+)
max max,LOC107668248,LOC107721316,LOC107671780,LOC108269635 coding upstream 485378 56261636 ~ 56274328 (+)
susd6 susd6 coding upstream 532677 56192379 ~ 56227029 (+)
LOC103042812 zbtb2,zbtb2b,LOC103042812,LOC108424498 coding upstream 810756 55936150 ~ 55948950 (+)
ino80 ino80,LOC107668207,LOC107739367,LOC107721325 coding downstream 1470 56767269 ~ 56819436 (+)
LOC103046620 syndig1l,LOC107562693,LOC107659181,LOC107602907,LOC107668242 coding downstream 449545 57215344 ~ 57284784 (+)
LOC103045802 inafm2,LOC106952300,LOC108165849 coding downstream 639952 57405751 ~ 57407393 (+)
zbtb25 zbtb25 coding downstream 667355 57433154 ~ 57438015 (+)
LOC103047529 NA coding downstream 1012406 57778205 ~ 57788035 (+)
G28702 NA non-coding upstream 156823 56602489 ~ 56602883 (+)
G28654 NA non-coding upstream 444950 56314038 ~ 56314756 (+)
G28637 NA non-coding upstream 531846 56214451 ~ 56227860 (+)
G28633 NA non-coding upstream 569423 56190067 ~ 56190283 (+)
G28632 NA non-coding upstream 569871 56189606 ~ 56189835 (+)
G28776 chac1,LOC107721326,LOC107739370,LOC107659180,LOC107668209 non-coding downstream 54791 56820590 ~ 56823036 (+)
G28805 NA non-coding downstream 58889 56824688 ~ 56824999 (+)
G28807 NA non-coding downstream 63822 56829621 ~ 56830017 (+)
G28822 NA non-coding downstream 244678 57010477 ~ 57010719 (+)
G28833 NA non-coding downstream 352697 57118496 ~ 57118723 (+)
dcaf4 dcaf4,LOC107602090,LOC107659175,LOC107562700 other upstream 53614 56695844 ~ 56706092 (+)
sipa1l1 sipa1l1,LOC107721317,LOC107668228,LOC107756605,LOC107659170,LOC106932450,LOC102236503,LOC106960899,LOC103130950,LOC103457354,LOC107081118 other upstream 305772 56337156 ~ 56453934 (+)
LOC103033217 rab15,LOC107668202,LOC107671782,LOC103457353,LOC106608154,LOC106571087,LOC104949855 other upstream 447595 56290747 ~ 56312111 (+)
LOC103029514 srsf5,srsf5b,LOC103029514,LOC107756601,LOC107602033,LOC107549086,LOC107721313 other upstream 519977 56232739 ~ 56239729 (+)
LOC103023616 LOC108424481,LOC108257757 other upstream 1356376 55380604 ~ 55403330 (+)
G28865 NA other downstream 636126 57401925 ~ 57402392 (+)
LOC103042006 NA other downstream 1037092 57802891 ~ 57812488 (+)
G29155 foxq1 other downstream 1651595 58417394 ~ 58418817 (+)
mtmr9 mtmr9,LOC107746110,LOC107701508,LOC107723304 other downstream 2298674 59064473 ~ 59112315 (+)
G29382 NA other downstream 2454733 59220532 ~ 59221036 (+)

Expression


Co-expression Network