vps54 (vps54,LOC107709616)


Basic Information

Item Value
gene id vps54
gene name vps54,LOC107709616
gene type coding
species mexican tetra (Astyanax mexicanus)
category of species ornamental fish

Chromosome Information

Item Value
chromosome id NC_035908.1
NCBI id CM008311.1
chromosome length 31403898
location 2308299 ~ 2328262 (+)
genome version Astyanax_mexicanus-2.0_2017_mexican_tetra_Genome

Sequence

>XM_022674489.1
ACGATGCTCTGCTACCCGGCGGCCGTTGTTGTGATGGTGACCGAAGCGGAGCAACTTTAGTCGGTCATGTTTCTCCGCCGCTGCCGCTCCTTACACAACAGctgGCTGCTGGTGTGAGGTAGCCGCTCTGCGATGGCGTCTGGACCGGGCTCGTCGCCGGTGGCCCAGGCCAGCGCGGGCAGCAGCGGCCCTGATGGATTCTTCCGGAAGCCCAGAGAGGCGGCCGGTTCCTCCAGACACTACAGACCCCCTCGCTCTCTCCCTGACGTCTGTCCCAAGGAGCCCACCGGGGAAGCCCGGGGGCTGTGTGAGGGTCCGTCGGTGGTGGCGGATCAGCACCGGTGGACGGTGTATAACTCTAAAGTGAACCTGCCGGCCGCCCTAAACGACCCGCGCCTCGCCAAACGCGAGTCTGACTTCTTCACCAAGACCTGGGGGCTGGACTTCACCGAGACCGAGGTGATGCCTTCATTCTACCTGCCCAACATAACGGCCGAGCACTTCAGCGAGTACCTGCAGGAGACCGCTCAGAGGGAGAAAATCCACGAGAGGTGTAAGAACATTTGTCCCAATAAAGACGATCTGTCCGTGCCCAACATCACAAACAACCACGATAAAGCCAAAGAAGAGCTTGAGCAGGTGCCTAAGATCTTCATGAGGCCGGACTTCGTGCTGAACGACCCCGCCACATTCAACACTGTGTTACCGTGGTCTCACTTCAGCGTTGCCGGGGGGAAGAACAGTCGAGATGGTGCGTCGTCACGGTTACTGCAGGAAAAGTTGAGTCACTATCTGGATGTGGTGGAGGTCAGCATCGCCCGGCAGATCTCTCTGCGCTCCGAGGCGTTTTTCCACGCCATGTCCTCCCAGCACGAGCTGCAGGACCGGCTGCGGGAGACGGCGGTCGCCGTGGCGACGCTGAGGGCCCGGACGGCGGTGATGGACCGGGTGATGTGCCGGGGGCCGCTCCAGGCTCTGAAGGACACGGTGACCCGCAGTAACTGTGCCAAGCTGCACGGAAAGCTGAAGCTGATGGCGGCTGTGCAGCAGACGCAGCCCACCGTGCAGTTACTGCTCTCCACCTCCGAGTTCGTGGGGGCGCTAGAGCTCATCGCCACCACCAAGGAGGTGCTGCAGCAGGAGCTACAGGGCATACACAGCTTCAggcACCTGGGCTCTCAGCTGTGTGAGATGGAGAAGCTGATTGATAAAAtgattgtggctgattttactACCTATTCCAGAAGTGACCTCAACCGCTCCTTTGAGGACGACAGCCAAGTGTTGGAAAAGGTTCCAAACCACAAACCGGCGAATGAGAAGGACCGTCTCCAGTCTCTGGTGTTTGGTTTACTGAGGCAGAGGAAGCTGGATTTCCTGGATATTTACAGTGAGGAGATGATGCAGGCAGCTAAAGGCATCGTCAGGCAGTGTGTGTTGAGATCCGTGTCTCAGATTGAGGACATGGACACAGACACTGTGGTAAAgctgCAGGATCAGATGAGGTTGATGAAGTTCTCTCAGTGGTTTGAGTTGCTGCAGAACGTCTTCGAGCATTTTGTTCTCTTCCTCACCAGAATCAAGgcCACTCTCAGCGTGATCCGTAACGTAGTTCTGGAAGTGCTGGACAGTTGTCAGAGGAGCCGCATGGCCGACTCTTCTTCTGCGATTGCCGACGGGAACTGTGGTGAGAATGAAGACGAGGATGAGGAGGATTCCGGAGGCTCGAGTCTTCGTCCCGGAGAGGCGGAGCTTGCGTATCTCACACACGAGGGGCTGTTCATCAGCGATGCATTAAATGAAGCAGAGCGGCGCAGCAGCACAGCCGCACCGTCAAAAACGCAAACGCAAACCCGAGCGGAGACGTCCGGGAGCGACTCGGCCTCGGGAACCACAGAGTCTTcatccagcagagagcagaccACTAACACTGCCTCCTCCCTGCCCACAGGGGGCACCACCTCCATTGAGGATCTGATGCCGTCTGATCTGGAACTGGGCCGAGTGGCCAACAACATCCAGGAGCTCCTCTACACCGCCTCCGACATCAGCCACGACCGCTGTGTTAAAGTCCTGCTGGCTAAAGccaaggactGTTCTCTGGAGCGTCTGAGCTCGGcggagtttgtgtgtgtgagccggGCGGTGGAGGGCTTCGTGAAGGAGACGGAGGCTCTGTGCAGCAGACGCAGCGTCAGCCTGAGGGGGGCGCTGCAGAGCCAGGCCAACCGCTTCGTCCACCGCTTCCACGAGGAGCGCAAAACCAAgctcagtctGCTGCTGGACAATGAGAGATGGAAGCAGGCTGAGGTTCCGGCTGAGTTTCAGCACCTGGTCGACTCCATCGCAGACGGACACATCACACTGCCTGAACGCAAACctgcagGAACGGAAGAAAAGAAGCCCAGTGACTTCCTGCTGGTTGACGGGCAGAAGTATGCGGTTGTCGGGACGGTGCTGCTGCTGATCCGGATCTTTCTGGAATACTGCCAGTGTGTGAACGACATCCCGTCCATCACCACTGACATGCTCACACGCCTCGCAGATCTACTCAAGCACTTCAACTCGCGGAGCTGTCAGCTGGTTCTTGGGGCCGGAGCTCTGCAGGTGGTGGGGCTCAAAACCATCACCACCAAGAACCTGGCTCTCGTGTCTCGCTGTCTGCAGCTGGTTGTTCACTACATCCCCATCATTAGAGCACACTTCGAGACCAAACTGCAGCCCAAACAGTACAGCATCCTGCGCCACTTTGACCACATCACCAAGgaCTATAACGACCACATTGCTGAGATCTCAGCTAAACTTGTGGCCATTATGGACGGCCTGTTTGAAAGAGTGCTATCAAagTATGAAGTGAAAGCCCCGATGCCGTCGCTGTGTTTTCGTAATGTCTGCAAGCAAATGGCCAAAATGCACGAGGCCATCCACGATCTCCTACCTGAGGAGCAgacacagatgTTGTTTCTGCGGATCAACACAAGCTTTAAGATGCACCTGAAGAGGCAGCTCTCTCGACTGGGGGTCATAAACGATGGTGGTCCTCAGCAAGGGCTGGTGGTGGTTGACGTGGCCTTCTACACAGAGAACGTTCAGGCGCTGCGCTCGCTGGAGCGTTTGGACTTAAACATGCCAGAGATCTGGGAGCAGAAGAGGTGATGACCCGCAGCCGGGCCAGTGAGGGCCTTTCTGCCTCGTCTGTCGCCATGGCGACCTGCCCCGCCCcgtcctcttcctcctgcatccTCACTGACGGTGATGAGGACGGGATGATGGTCCTGCGGGAAGAGGGATGAGAACACtcgttttttttggaaaatcaaACTGTTGTCAGACACTGTTAAAGAAAACTCAAATCTCTTTTTACCTCCTCGCCCAGGAGCTCGCCCACGCTCCGGCAGCTTCCTGCCCCAACAAGAGTGTGTCTCCCTGGGCTAGAGCGAGCAGGACAGTCCCTGGAACTGCAGCGTTTGGTGATGGCAGTGTACAACCTCATGTTTTACTCTACAGTACAGGCCTAGCGGAGGTCGGCCTTTGGGGGACCAAATCAGGATAAGCTAAGTGTTGGTTAAAGGGGAAATCTGGAGTTATTCAGCCTGATCTCTGTCTGTTGCATCTGTAGCATTTCAAATTATCAATTCAGATTATTAATTTaacctaaaaacaaaaaacatatcacTCTGAATGCAGAGTTGCTTTATACTAGACTACTTATAATGAGAACCAATGGGAACCATTGCTTCAGTCCAGGCTTATAATATACAGCAATAGACTGTTGTTTCAATCCTGATatctgatatacagctctggaaaaatgaagagagcacttcagtttctgaatcagtttctctgattttgctatttatag
>XM_022674490.1
ACGATGCTCTGCTACCCGGCGGCCGTTGTTGTGATGGTGACCGAAGCGGAGCAACTTTAGTCGGTCATGTTTCTCCGCCGCTGCCGCTCCTTACACAACAGctgGCTGCTGGTGTGAGGTAGCCGCTCTGCGATGGCGTCTGGACCGGGCTCGTCGCCGGTGGCCCAGGCCAGCGCGGGCAGCAGCGGCCCTGATGGATTCTTCCGGAAGCCCAGAGAGGCGGCCGGTTCCTCCAGACACTACAGACCCCCTCGCTCTCTCCCTGACGTCTGTCCCAAGGAGCCCACCGGGGAAGCCCGGGGGCTGTGTGAGGGTCCGTCGGTGGTGGCGGATCAGCACCGGTGGACGGTGTATAACTCTAAAGTGAACCTGCCGGCCGCCCTAAACGACCCGCGCCTCGCCAAACGCGAGTCTGACTTCTTCACCAAGACCTGGGGGCTGGACTTCACCGAGACCGAGGTGATGCCTTCATTCTACCTGCCCAACATAACGGCCGAGCACTTCAGCGAGTACCTGCAGGAGACCGCTCAGAGGGAGAAAATCCACGAGAGGTGTAAGAACATTTGTCCCAATAAAGACGATCTGTCCGTGCCCAACATCACAAACAACCACGATAAAGCCAAAGAAGAGCTTGAGCAGGTGCCTAAGATCTTCATGAGGCCGGACTTCGTGCTGAACGACCCCGCCACATTCAACACTGTGTTACCGTGGTCTCACTTCAGCGTTGCCGGGGGGAAGAACAGTCGAGATGGTGCGTCGTCACGGTTACTGCAGGAAAAGTTGAGTCACTATCTGGATGTGGTGGAGGTCAGCATCGCCCGGCAGATCTCTCTGCGCTCCGAGGCGTTTTTCCACGCCATGTCCTCCCAGCACGAGCTGCAGGACCGGCTGCGGGAGACGGCGGTCGCCGTGGCGACGCTGAGGGCCCGGACGGCGGTGATGGACCGGGTGATGTGCCGGGGGCCGCTCCAGGCTCTGAAGGACACGGTGACCCGCAGTAACTGTGCCAAGCTGCACGGAAAGCTGAAGCTGATGGCGGCTGTGCAGCAGACGCAGCCCACCGTGCAGTTACTGCTCTCCACCTCCGAGTTCGTGGGGGCGCTAGAGCTCATCGCCACCACCAAGGAGGTGCTGCAGCAGGAGCTACAGGGCATACACAGCTTCAggcACCTGGGCTCTCAGCTGTGTGAGATGGAGAAGCTGATTGATAAAAtgattgtggctgattttactACCTATTCCAGAAGTGACCTCAACCGCTCCTTTGAGGACGACAGCCAAGTGTTGGAAAAGGACCGTCTCCAGTCTCTGGTGTTTGGTTTACTGAGGCAGAGGAAGCTGGATTTCCTGGATATTTACAGTGAGGAGATGATGCAGGCAGCTAAAGGCATCGTCAGGCAGTGTGTGTTGAGATCCGTGTCTCAGATTGAGGACATGGACACAGACACTGTGGTAAAgctgCAGGATCAGATGAGGTTGATGAAGTTCTCTCAGTGGTTTGAGTTGCTGCAGAACGTCTTCGAGCATTTTGTTCTCTTCCTCACCAGAATCAAGgcCACTCTCAGCGTGATCCGTAACGTAGTTCTGGAAGTGCTGGACAGTTGTCAGAGGAGCCGCATGGCCGACTCTTCTTCTGCGATTGCCGACGGGAACTGTGGTGAGAATGAAGACGAGGATGAGGAGGATTCCGGAGGCTCGAGTCTTCGTCCCGGAGAGGCGGAGCTTGCGTATCTCACACACGAGGGGCTGTTCATCAGCGATGCATTAAATGAAGCAGAGCGGCGCAGCAGCACAGCCGCACCGTCAAAAACGCAAACGCAAACCCGAGCGGAGACGTCCGGGAGCGACTCGGCCTCGGGAACCACAGAGTCTTcatccagcagagagcagaccACTAACACTGCCTCCTCCCTGCCCACAGGGGGCACCACCTCCATTGAGGATCTGATGCCGTCTGATCTGGAACTGGGCCGAGTGGCCAACAACATCCAGGAGCTCCTCTACACCGCCTCCGACATCAGCCACGACCGCTGTGTTAAAGTCCTGCTGGCTAAAGccaaggactGTTCTCTGGAGCGTCTGAGCTCGGcggagtttgtgtgtgtgagccggGCGGTGGAGGGCTTCGTGAAGGAGACGGAGGCTCTGTGCAGCAGACGCAGCGTCAGCCTGAGGGGGGCGCTGCAGAGCCAGGCCAACCGCTTCGTCCACCGCTTCCACGAGGAGCGCAAAACCAAgctcagtctGCTGCTGGACAATGAGAGATGGAAGCAGGCTGAGGTTCCGGCTGAGTTTCAGCACCTGGTCGACTCCATCGCAGACGGACACATCACACTGCCTGAACGCAAACctgcagGAACGGAAGAAAAGAAGCCCAGTGACTTCCTGCTGGTTGACGGGCAGAAGTATGCGGTTGTCGGGACGGTGCTGCTGCTGATCCGGATCTTTCTGGAATACTGCCAGTGTGTGAACGACATCCCGTCCATCACCACTGACATGCTCACACGCCTCGCAGATCTACTCAAGCACTTCAACTCGCGGAGCTGTCAGCTGGTTCTTGGGGCCGGAGCTCTGCAGGTGGTGGGGCTCAAAACCATCACCACCAAGAACCTGGCTCTCGTGTCTCGCTGTCTGCAGCTGGTTGTTCACTACATCCCCATCATTAGAGCACACTTCGAGACCAAACTGCAGCCCAAACAGTACAGCATCCTGCGCCACTTTGACCACATCACCAAGgaCTATAACGACCACATTGCTGAGATCTCAGCTAAACTTGTGGCCATTATGGACGGCCTGTTTGAAAGAGTGCTATCAAagTATGAAGTGAAAGCCCCGATGCCGTCGCTGTGTTTTCGTAATGTCTGCAAGCAAATGGCCAAAATGCACGAGGCCATCCACGATCTCCTACCTGAGGAGCAgacacagatgTTGTTTCTGCGGATCAACACAAGCTTTAAGATGCACCTGAAGAGGCAGCTCTCTCGACTGGGGGTCATAAACGATGGTGGTCCTCAGCAAGGGCTGGTGGTGGTTGACGTGGCCTTCTACACAGAGAACGTTCAGGCGCTGCGCTCGCTGGAGCGTTTGGACTTAAACATGCCAGAGATCTGGGAGCAGAAGAGGTGATGACCCGCAGCCGGGCCAGTGAGGGCCTTTCTGCCTCGTCTGTCGCCATGGCGACCTGCCCCGCCCcgtcctcttcctcctgcatccTCACTGACGGTGATGAGGACGGGATGATGGTCCTGCGGGAAGAGGGATGAGAACACtcgttttttttggaaaatcaaACTGTTGTCAGACACTGTTAAAGAAAACTCAAATCTCTTTTTACCTCCTCGCCCAGGAGCTCGCCCACGCTCCGGCAGCTTCCTGCCCCAACAAGAGTGTGTCTCCCTGGGCTAGAGCGAGCAGGACAGTCCCTGGAACTGCAGCGTTTGGTGATGGCAGTGTACAACCTCATGTTTTACTCTACAGTACAGGCCTAGCGGAGGTCGGCCTTTGGGGGACCAAATCAGGATAAGCTAAGTGTTGGTTAAAGGGGAAATCTGGAGTTATTCAGCCTGATCTCTGTCTGTTGCATCTGTAGCATTTCAAATTATCAATTCAGATTATTAATTTaacctaaaaacaaaaaacatatcacTCTGAATGCAGAGTTGCTTTATACTAGACTACTTATAATGAGAACCAATGGGAACCATTGCTTCAGTCCAGGCTTATAATATACAGCAATAGACTGTTGTTTCAATCCTGATatctgatatacagctctggaaaaatgaagagagcacttcagtttctgaatcagtttctctgattttgctatttatag

Function

symbol description
vps54 Predicted to enable syntaxin binding activity. Predicted to be involved in Golgi to vacuole transport and retrograde transport, endosome to Golgi. Predicted to act upstream of or within protein transport. Predicted to be located in Golgi apparatus. Predicted to be part of GARP complex. Orthologous to human VPS54 (VPS54 subunit of GARP complex).

NR:

description
vacuolar protein sorting-associated protein 54-like isoform X1

GO:

id name namespace
GO:0042147 retrograde transport, endosome to Golgi biological_process

KEGG:

id description
K17600 VPS54; vacuolar protein sorting-associated protein 54

RNA

RNA id representative length rna type GC content exon number start site end site
XM_022674489.1 True 3865 mRNA 0.55 24 2308299 2328262
XM_022674490.1 False 3835 mRNA 0.55 23 2308299 2328262

Neighbor

gene id symbol gene type direction distance location
LOC103028349 NA coding upstream 78276 2222873 ~ 2230023 (+)
LOC103028654 rab1a,LOC108436370,LOC105021598,LOC107676578,LOC107666439,LOC106585917 coding upstream 95490 2205433 ~ 2212809 (+)
cenpm cenpm coding upstream 170093 2131980 ~ 2138206 (+)
LOC103037292 zgc:158803,LOC108411937,LOC108258445,LOC107700834,LOC107598467,LOC107709610,LOC107747154 coding upstream 177652 2117126 ~ 2130647 (+)
mri1 mri1,LOC107594353,LOC107703717,LOC107700835 coding upstream 192347 2099791 ~ 2115952 (+)
khsrp khsrp coding downstream 41694 2369956 ~ 2389979 (+)
LOC103025604 LOC108436360,LOC107598482,LOC107700849,LOC107747162 coding downstream 73292 2401554 ~ 2415821 (+)
LOC103022670 pgam1,LOC108436383,LOC108258456,LOC107729838,LOC107700858,LOC107598490 coding downstream 176223 2504485 ~ 2506380 (+)
exosc1 exosc1,LOC107700859,LOC107598491 coding downstream 180274 2508536 ~ 2518926 (+)
pkd1 pkd1 coding downstream 446896 2775158 ~ 2916200 (+)
G100177 NA non-coding upstream 44813 2261858 ~ 2263486 (+)
G100174 NA non-coding upstream 47064 2260659 ~ 2261235 (+)
G100175 NA non-coding upstream 47913 2259229 ~ 2260386 (+)
G100178 NA non-coding upstream 73137 2234890 ~ 2235162 (+)
G100149 NA non-coding upstream 159299 2148473 ~ 2149000 (+)
G100199 NA non-coding downstream 16771 2345033 ~ 2345669 (+)
G100202 NA non-coding downstream 27065 2355327 ~ 2356036 (+)
G100205 NA non-coding downstream 103893 2432155 ~ 2435667 (+)
G100216 NA non-coding downstream 162537 2490799 ~ 2493218 (+)
G100221 NA non-coding downstream 197295 2525557 ~ 2537407 (+)
LOC103031088 NA other upstream 256441 2040094 ~ 2051858 (+)
LOC103031617 NA other upstream 269557 2032895 ~ 2038742 (+)
LOC103038569 NA other upstream 292036 2012029 ~ 2016263 (+)
LOC103047668 NA other upstream 419062 1885228 ~ 1889237 (+)
LOC111193593 NA other upstream 455280 1845491 ~ 1853019 (+)
c12h19orf53 LOC103027500 other downstream 5345 2333607 ~ 2336332 (+)
LOC103026535 slc25a23a,LOC103026535,LOC107594260,LOC107703801,LOC107747161,LOC108258471 other downstream 15357 2343619 ~ 2368564 (+)
avpi1 NA other downstream 123139 2451401 ~ 2463385 (+)
LOC111193601 NA other downstream 165499 2493761 ~ 2500431 (+)
LOC111193505 NA other downstream 282255 2610517 ~ 2625505 (+)

Expression


Co-expression Network