vps54 (vps54,LOC107709616)


Basic Information

Item Value
gene id vps54
gene name vps54,LOC107709616
gene type misc
species striped catfish (Pangasianodon hypophthalmus)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_047620.1
NCBI id CM018566.1
chromosome length 19313417
location 15963876 ~ 15984959 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome

Sequence

>TU446509
cagtttgttGTTGGACACAGAAAGATGGAAGCAGGCTGAAGTTCCTGCTGAGTTCCAGCACCTGGTCGACTCCATCGCTGACGGACACATCACACTGCCCGAACGCAAacctgcagGTCCAGAAGAGAAGAAGCCGAGTGACTTCCTGCTGGTTGATGGGCAGAAATATGCTGTCGTTGGGACGGTGCTGCTGCTGATCCGGATGTTTCTGGAATACTGTCAGTGTGTGAACGACATCCCGTCCATCACCACCGACATGCTGACACGCCTCTCGGACCTCcttaagCTGTCAGCTGGTGCTCGGGGCTGGAGCTCTGCAAGTGGTGGGACTGAAGACCATCACCACCAAGAAcctggctctggTGTCTCGGTGTCTGCAGCTGGTTGTTCACTACATCCCCATAATCCGAGCGCACTTTGAGACCAAACTCCAACCCAAACAGTACAGCATCCTGCGCCACTTTGACCACATCAccaaggactaTAATGACCATATAGCTGAGATCTCGGCTAAGTTAGTGGCTATCATGGACAGTCTGTTTGAGAAAGCACTATTCAAGtatGAAGTAAAGGCTCCGATGCCGTCACTGTGTTTCCGTAATTTGTGCAAGCAGATGGCCAAAATGCACGAGGCCATCCACGAGCTCCTACCTGAGGAACAGACtcagaTGCTGTTTCTGAGGATCAATGCAAGTTTTAAGCTTCACCTGAAGAGGCAGCTGGCTCGGCTCGGGGTGGTGAACGATGGCGGACCACAGCATGGGTTGGTGGTGGTGGACGTGGCCTTCTACACGGAGAACATTCAGGCTCTGCGTTCTCTCGAGCGGTTGGACTTAAACATGCCTGAGATCTGGGAGCAGAAGAGGTGATGATGGACAGCCAGGCCCAGCCAATCGGGTCTTTCCATCTCCTCTCTGGTCGCTTACAACGACCTGCCCCCCCCCTCTCCTTCtcacttcctcctcttcctggaGGAcatggggtcagaggtcacacaGGAAGTGAACACTGTATACAAGACttctctataaacacacttttTACCTCTTCGTCCAGAACTGCTGTGacgcctatttttttttttttttttccgggaATGATCTGGAGCATTAAAGCATCAGACTTTCACTTCCAAGTGACCAATCAGGATAAGCTAAGGGATCCTCTGTGGGCGGGaactttcttcttctgttgGGTTTAAAGCTCAGTGCCTCATGGTGTGCTGTCGATGCAGCGCAACTCTACACTCGTGTGCAATCCTGTCAAATGATTATGGAATGAAACGGAGaataaattatgatttttttttttgatttgatGTTTATATATGCACCAGTgggtttaaaaatgtaaacttgggtaatttattttcttgttctgATCTGATTTTACTGGatgatttattgtttgttttttgtttttgttttttttaataatcatcttTACAACCTTATGGTCATGGAATATAACGAGAGCGGTTATGAGGGAAGTGAGCGTGTTAATTCAGAAAGGCTTTTGGAAATGTCATTAAAACCCCTTTACCCTTCCAGTATTTTAACACCGAGGCCGAGATTCTCCTCCGTCACTCCTCAAGCTTCCGAGTGGAAGTTTACACGTTACGCATTAATACATTACTTCTTTCCATTTTGGAGGCAGCTGCTTCAAAAGTCCTTGCATCACCgggccactttttttttttttttttttactgagaaacaaaCTTGTGGAAGCCTCAGCCTTCAGTCTCATAATCAGTCATAAATTTTAGCACTCTCTCTGCTCGTGACATTGTATATTCACTATCATGAAGCTAATTTGCTAGTTTATCAGCTTTCCTGAggacagatgtttatttataggcctacaGCGAGTCTAATCCTTTAGGATTGTTGAACTTTTCATAATCTCATGTACAGATTTAGATGATTTGCCTACACCGAGGGAACATATGTGTGATGCTGTTCTCAAATTTGACCAAAAACTAGTAGAACCCTGCATTAACAGGGATGTCTCCACCACCAtgaagtctagtccttcttgttgcTGATTTGTATGCCTCGAATCcccttaaaatatactacaTACACACAAGTGGTGAAGTGAGAGAAATTGAGAGGATGAGCATTTCTGAATGAGGCAGCTTTACCTTAAGCATGCACAAATCCCTGCCTCGAAAGCTGTCTTCTGACTGGAACACATCTGTTTATTGCGGTGTTGACAGACCCAAATGCTTTCTTGTCATAAAAACAGTACTTCCGTCTACATGTCCATCTTTAAAGTGCTGCTCTGTGGGAACTCGTCACGCCATTAACTTGTGTTCTCGATGGTGTTAACCCATAATGCCCAGCCGCAGCTACTAGGAGTGCTCAGTATTTACGAtcagaaggaggcgtggccttgcAGTAACTCAAATCAATAAATCTGCATACTCATCCCAATCGTATTGCATCACAGCTTGATGAAATGGCTCCGAGTCGTATCATAGCCATATTTTATACATCAGAGTGTCGATCAGTGAGAGAGACGTGCTCTTGGTACCTAAtggcttttatttattgctttcgTATTATATTTTGAGCACATTTTATGCAAATATGTGAACTGTCAGcctctgaaaaaagaaaacacactaaTAAGACGTGGACTAGGCATTATCAGGACTTTGGGATTGAACGTTTCAGACAGCAAGCGAGATGTTTTTAGTATATCTCAATGCACagatctttatttttttgcctctgATGTTCATAACATTAAGAAAAACAGTACAGACTGTGAGAGAAAACGCTCGCCCGGGTTTAACCACAGCACTGTCTTGGTCAAAAGTGCCTACTTTTGATTCACCATCAAAGACTACTTCTCTTCTGACCGACTTacagccttgtgtgtgtgtgtgtgtgtgtgtgtgtgagagagacatcTGTAAGACCTACAGGAGAAATCTGACGGCAtgc
>XM_034300052.1
CGAGCCGGGTGTTCGTTCCGCTTCCGGTTTGCGGGGATGTTGCTATGCGATGTGGAGTGTAGCTGTTGATATGCTGTTGGCCGGACGCTGCCGTTCTTCACACAACAGCTGGAGGCTGGTGTGAGGAAGCGGCGCTGCCATGGCGTCCGGACCGGGCTCGGTGCCCGTGGTTCAGCCCGGTGTGGGCCCCGCTGGCACTGACCGGCTCTTCCGGAAGCCCAGAGACCTGATGGGTTCGTCTACACACTACAGACCTCCGCGCTCTCTCCCTGACGTCTGCCCCAAGGAGCCTACAGGTGAGGCGCGCGGGCTGAGTGACGCTCCGTCAGTGGTGGCGGATCAGCACCGATGGACGGTATATAACTCTAAGGTGAACCTGCCGGCGGCGCTGAACGACCCGCGGCTGGCCAAGCGCGAGTCCGACTTCTTCACCAAGACCTGGGGATTGGACTTCACCGAGGGGGAGGTGATGCCCTCGTACAGCCTGCCCAACATCACAGCCGAACACTTCAGCACGTACCTGAATGACACtgctcagAGGGAGAAAATCCACGAGCGGTGTAAAAACATCTGCCCCAATAAAGACGACCTCTCCATCCCCAACATCACAAACAATCACGATAAAGCCAAAGAGGAGCTTGAGCAGGTGCCTAAGatctTCATGAGGCCTGACTTCGTACTGAGCGACCCGGCCACCTTCAGCGCCGTGTTGCCGTGGTCGCACTTCAGCGTCGCCGGGGGGAAGAGCGGCCGGGATGCCGCATCGTCACGGTTACTGCAAGAGAAATTGAGTCACTACCTGGACGTGGTGGAGGTGAGCATCGCGAGACAGATCTCTCTGCGCTCCGAGGCGTTCTTCCACGCCATGTCGTCTCAGCGCGAGCTGCAGGAGCAGCTGTGCGAGGCGGCGGGCGCCGTGAGGGCGCTGCGGGAGCATACGGCCAGCATGGGGCGCACCATGAGCCTCGGGCCTCTGCGGGCGCTGCGGCACACGGTCACGCGCAAGAACTGCGTCACGCTGCACAGTAAACTGAAGCTGATGGCGGCGGTGCAGCAGACACAGCCCACCGTGCAGCTGCTGCTCTCCACCTCCGAGTTCGTGGGTGCGCTGGAGCTCATCAACACCACCAAAGAGGTGCTGCAGCAGGAGCTCCAGGGCATCCACAGCTTcagacaccTGGGCTCTCAGCTGTGTGAAATGGAGAAGCTGATCGATAAGATGATGGTGGCCGATTTCACCACTTACTCCAGAAGCGACCTCAGCCGAACCTTCGAGGACGACAACCAAGTGCTGGAGAAGgaccGGCTGCAGTCTCTGGTCTTTGGCCTGCTGAGACAGAGGAAGCTGGATTTCCTGGACATCTACAGCGAGGAGATGATGCAAGCAGCGAAGGGCATCGTCAGACAGtgtgtgataAAGTCGGTGTCTCAGATTGAGGATATCGACACCGACACTGTCGTGAAactACAGGATCAGATGAGGTTGATGACGTTTGCTCAGTGGTTTGAGCTCCTGAAGAACGTGTTTGAGTATTTCCTGCTCTTCCTCACCAGGATCAAGgccaCTCTTGGGGTGATCCGAAACGTGGTTCTGGAAATCCTCGACAGCAGCCAGAGGAACCGAGCGGCTGACGCGTGCGCGCTCGCTGACGGCGGCTCCGCGGAGAACGAAgacgaggaggaggacgaggaatCAGGTCTCCGTCCCGGAGAAGCCGAGCTCGCCTTCCTCACACACGAGGGGCTGTTCATCAGCGACGCGTTAAACGAAGCCGAACGCCGCAGCAACGGCGCGTCCACTCAGACCAGAACGCAAGCGAAAGAGGAAGCTTCGGGAAGCGACTCAGCCTCGGGCACTACGGAGTCGTCCTCCAGCAGAGAGCACATCACAAACACTACCTCCTCCCTGACCACAGGGGGCGCCGCTGCACTTGAGGATCTGATGCCATCTGATCTGGAGCTGGGCAGAATCGCCAACAACATCCAGGAGCTGCTGTACACCGCCTCGGACATCAGCCACGACCGCTGTGTCAAAGTCCTGCTGGCTAAGGCCAAGgacggCTCTCTGGAGCGTCTGAGCTCGGCGGAGTTCGTGTGTGTGAGCCGGGCGGTGGAAGCCTTCGCCAAGGACACTGAGGCTCTGTGCTCCAGGCGGAGTGTGAGTCTGCGGGGGGCGCTGCAGAGTCAGGCCAATCGCTTCGTCCACCGCTTCCACGAAGAGCGCAAGACCAagctcagtttgttGTTGGACACAGAAAGATGGAAGCAGGCTGAAGTTCCTGCTGAGTTCCAGCACCTGGTCGACTCCATCGCTGACGGACACATCACACTGCCCGAACGCAAacctgcagGTCCAGAAGAGAAGAAGCCGAGTGACTTCCTGCTGGTTGATGGGCAGAAATATGCTGTCGTTGGGACGGTGCTGCTGCTGATCCGGATGTTTCTGGAATACTGTCAGTGTGTGAACGACATCCCGTCCATCACCACCGACATGCTGACACGCCTCTCGGACCTCcttaagCACTTCAATTCCCGCAGCTGTCAGCTGGTGCTCGGGGCTGGAGCTCTGCAAGTGGTGGGACTGAAGACCATCACCACCAAGAAcctggctctggTGTCTCGGTGTCTGCAGCTGGTTGTTCACTACATCCCCATAATCCGAGCGCACTTTGAGACCAAACTCCAACCCAAACAGTACAGCATCCTGCGCCACTTTGACCACATCAccaaggactaTAATGACCATATAGCTGAGATCTCGGCTAAGTTAGTGGCTATCATGGACAGTCTGTTTGAGAAAGCACTATTCAAGtatGAAGTAAAGGCTCCGATGCCGTCACTGTGTTTCCGTAATTTGTGCAAGCAGATGGCCAAAATGCACGAGGCCATCCACGAGCTCCTACCTGAGGAACAGACtcagaTGCTGTTTCTGAGGATCAATGCAAGTTTTAAGCTTCACCTGAAGAGGCAGCTGGCTCGGCTCGGGGTGGTGAACGATGGCGGACCACAGCATGGGTTGGTGGTGGTGGACGTGGCCTTCTACACGGAGAACATTCAGGCTCTGCGTTCTCTCGAGCGGTTGGACTTAAACATGCCTGAGATCTGGGAGCAGAAGAGGTGATGATGGACAGCCAGGCCCAGCCAATCGGGTCTTTCCATCTCCTCTCTGGTCGCTTACAACGACCTGCCCCCCCCCTCTCCTTCtcacttcctcctcttcctggaGGAcatggggtcagaggtcacacaGGAAGTGAACACTGTATACAAGACttctctataaacacacttttTACCTCTTCGTCCAGAACTGCTGTGacgcctatttttttttttttttttccgggaATGATCTGGAGCATTAAAGCATCAGACTTTCACTTCCAAGTGACCAATCAGGATAAGCTAAGGGATCCTCTGTGGGCGGGaactttcttcttctgttgGGTTTAAAGCTCAGTGCCTCATGGTGTGCTGTCGATGCAGCGCAACTCTACACTCGTGTGCAATCCTGTCAAATGATTATGGAATGAAACGGAGaataaattatgatttttttttttgatttgatGTTTATATATGCACCAGTgggtttaaaaatgtaaacttgggtaatttattttcttgttctgATCTGATTTTACTGGatgatttattgtttgttttttgtttttgttttttttaataatcatcttTACAACCTTATGGTCATGGAATATAACGAGAGCGGTTATGAGGGAAGTGAGCGTGTTAATTCAGAAAGGCTTTTGGAAATGTCATTAAAACCCCTTTACCCTTCCAGTATTTTAACACCGAGGCCGAGATTCTCCTCCGTCACTCCTCAAGCTTCCGAGTGGAAGTTTACACGTTACGCATTAATACATTACTTCTTTCCATTTTGGAGGCAGCTGCTTCAAAAGTCCTTGCATCACCgggccactttttttttttttttttttactgagaaacaaaCTTGTGGAAGCCTCAGCCTTCAGTCTCATAATCAGTCATAAATTTTAGCACTCTCTCTGCTCGTGACATTGTATATTCACTATCATGAAGCTAATTTGCTAGTTTATCAGCTTTCCTGAggacagatgtttatttataggcctacaGCGAGTCTAATCCTTTAGGATTGTTGAACTTTTCATAATCTCATGTACAGATTTAGATGATTTGCCTACACCGAGGGAACATATGTGTGATGCTGTTCTCAAATTTGACCAAAAACTAGTAGAACCCTGCATTAACAGGGATGTCTCCACCACCAtgaagtctagtccttcttgttgcTGATTTGTATGCCTCGAATCcccttaaaatatactacaTACACACAAGTGGTGAAGTGAGAGAAATTGAGAGGATGAGCATTTCTGAATGAGGCAGCTTTACCTTAAGCATGCACAAATCCCTGCCTCGAAAGCTGTCTTCTGACTGGAACACATCTGTTTATTGCGGTGTTGACAGACCCAAATGCTTTCTTGTCATAAAAACAGTACTTCCGTCTACATGTCCATCTTTAAAGTGCTGCTCTGTGGGAACTCGTCACGCCATTAACTTGTGTTCTCGATGGTGTTAACCCATAATGCCCAGCCGCAGCTACTAGGAGTGCTCAGTATTTACGAtcagaaggaggcgtggcctctgcggCGGTCAGTCCCggcgaaggaggcgtggccttgcAGTAACTCAAATCAATAAATCTGCATACTCATCCCAATCGTATTGCATCACAGCTTGATGAAATGGCTCCGAGTCGTATCATAGCCATATTTTATACATCAGAGTGTCGATCAGTGAGAGAGACGTGCTCTTGGTACCTAAtggcttttatttattgctttcgTATTATATTTTGAGCACATTTTATGCAAATATGTGAACTGTCAGcctctgaaaaaagaaaacacactaaTAAGACGTGGACTAGGCATTATCAGGACTTTGGGATTGAACGTTTCAGACAGCAAGCGAGATGTTTTTAGTATATCTCAATGCACagatctttatttttttgcctctgATGTTCATAACATTAAGAAAAACAGTACAGACTGTGAGAGAAAACGCTCGCCCGGGTTTAACCACAGCACTGTCTTGGTCAAAAGTGCCTACTTTTGATTCACCATCAAAGACTACTTCTCTTCTGACCGACTTacagccttgtgtgtgtgtgtgtgtgtgtgtgtgtgagagagacatcTGTAAGACCTACAGGAGAAATCTGACGGCAtgcttgatgtttttttttttttttttttttttttttaaacgggAAAGTGACTTTAAATAAACCCAaactgtaaatggttaaaa

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
TU446509 False 2954 lncRNA 0.45 10 15963956 15970091
XM_034300052.1 True 5322 mRNA 0.51 24 15963876 15984959

Neighbor

gene id symbol gene type direction distance location
slc25a23a slc25a23a,LOC108258471,LOC103026535,LOC107747161,LOC107594260 coding downstream 8596 15945851 ~ 15955280 (-)
avpi1 NA coding downstream 68881 15886599 ~ 15894995 (-)
cdc25d LOC108258441 coding downstream 94322 15859404 ~ 15869554 (-)
pgam1b pgam1b,pgam1a,LOC108258456,LOC107700858,LOC103038634,LOC107598490,LOC107703810,LOC108436383 coding downstream 105559 15853218 ~ 15858317 (-)
exosc1 exosc1,LOC107598491,LOC107700859 coding downstream 111753 15842505 ~ 15852123 (-)
LOC113537394 NA coding upstream 1828 15986787 ~ 15999994 (-)
LOC113537693 NA coding upstream 27313 16012272 ~ 16024511 (-)
LOC113537692 NA coding upstream 47040 16031999 ~ 16037975 (-)
LOC117596132 NA coding upstream 60769 16045728 ~ 16051187 (-)
peli1a LOC108258444 coding upstream 71985 16056944 ~ 16069586 (-)
G376982 NA non-coding downstream 15797 15947648 ~ 15948079 (-)
G376961 NA non-coding downstream 80453 15881973 ~ 15883423 (-)
G376934 NA non-coding downstream 141371 15812366 ~ 15822505 (-)
G376840 NA non-coding downstream 184174 15778247 ~ 15779702 (-)
G376807 NA non-coding downstream 246930 15716192 ~ 15716946 (-)
G377087 NA non-coding upstream 180739 16165698 ~ 16169196 (-)
G377084 NA non-coding upstream 193651 16178610 ~ 16179122 (-)
G377125 NA non-coding upstream 278944 16263903 ~ 16265647 (-)
G377171 NA non-coding upstream 364418 16349377 ~ 16350060 (-)
G377172 NA non-coding upstream 365290 16350249 ~ 16350459 (-)
khsrp khsrp other downstream 21146 15929753 ~ 15942730 (-)
G376956 NA other downstream 43323 15917628 ~ 15920553 (-)
dpy30 dpy30,LOC107684266 other downstream 505671 15412424 ~ 15458205 (-)
triobpa LOC108259073 other downstream 834620 15117512 ~ 15129256 (-)
akt3b akt3b,LOC108259077,LOC108438606,LOC107594289,LOC107703832,LOC107729704,LOC101071975 other downstream 1002824 14910662 ~ 14961052 (-)
zgc:158803 LOC108258445,LOC108411937,LOC102793736,LOC100697878,LOC101478282,LOC102307186 other upstream 167960 16152919 ~ 16164370 (-)
si:ch211-286b5.5 LOC108258470,LOC108443951,LOC103031617,LOC105901802,LOC101074561,LOC103154361,LOC100701095,LOC105012046,LOC107391594,LOC105938735 other upstream 231791 16216750 ~ 16221615 (-)
LOC113537389 NA other upstream 436302 16421261 ~ 16475431 (-)
si:dkey-76b14.2 LOC108258416,LOC105891053 other upstream 581294 16566253 ~ 16583137 (-)
slc25a10 slc25a10,LOC108411213,LOC107747133,LOC107712055,LOC107569289,LOC100693267 other upstream 636208 16621167 ~ 16741989 (-)

Expression


Co-expression Network