XLOC_014233 (vps50)



Basic Information


Item Value
gene id XLOC_014233
gene name vps50
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information


Item Value
chromosome id NC_007130.7
NCBI id CM002903.2
chromosome length 48449771
location 40379771 ~ 40686675 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence


>TCONS_00028296
AACAGTGAACATGGCACCTGTCTAGCACTGCAGGAATCGCCTTTTGACAGAAAAGCATCACAGAAAACATCGCGTTTTACTGTTTAGTGTCCTCGACTGTTCGATGCAGAAAATCAAGTCTCTGATGGCCCGTCAGGGTCTGAAAAGTCCTCAGGAAAGTGTGGTTGACATGAGCCCTGTGGAGAGCTTCAGGACTCCCAGCAAGGAGGAGCTGAGGGAGCTGAGAGAGCAGCCCACGGATCCACAGGCAGAACAAGAAATCATTGACAGCATAGAGGAAGTCTACTACTCCAGCGACTCGTTTGACATGGTTCAATATGAACTTGAgAAACTCCCTCCGGATCTGAACCTTCTGGAGCTGGAGGAGTACAGAGATAAGCTGAAGCGACAGCAAGCAGCCGTGTCTAAACGAGTGGCGGACCTCATTCTGGAGAAACAGCCCTCCTATGTGAAGGAACttgagcgagtgacgtcactgcaAACCAATCTGCAGCTGGCTGCGGTCATCTGCACTAATGCACGAAGACAGCTTCGCTCTGCTAAAGAAGGTTTCACTGAAGCCAGTCTTGGGCTGTTAGCCAATCAGAGACGTCGACAGCTGCTGACAGGACTGTTGAAGTCTTTGAGGACCATAAAGACTCTGCAAAGAACTGATGTTCGACTGAGCGAAATGCTGGAGGAGGAGGACTATCCTGGCGCCATCCAGCTGTGTTTAGAATGCCAGAAAGCTGCCAGCACTTTCAAACACTACAACTGTATAAGTGAACTGAACTCCAAACTACAGGACACTCTGGAGCAAATCGAGGAGCAGCTGGATGTGGCTCTGTCCAAAACCTGCAAGCACTTCGATGTTTCTCACTACACCAAAGTTCAGCTGGCGTATAAACTCCTGGGCAAGACGCAGACGGCGATGGATCAGCTGCACATGCACTTCACCCAGGCCATCCACAACACCGTCTTCCAGGTGGTGCTGGGATACGTGGAACTCTGCGCCGGCAATGCAGACACCAAGTTCCAGAAGATGCAGTACAAAGACCTTTGCACG
>TCONS_00028297
ATGCAGAAAATCAAGTCTCTGATGGCCCGTCAGGGTCTGAAAAGTCCTCAGGAAAGTGTGGTTGACATGAGCCCTGTGGAGAGCTTCAGGACTCCCAGCAAGGAGGAGCTGAGGGAGCTGAGAGAGCAGCCCACGGATCCACAGGCAGAACAAGAAATCATTGACAGCATAGAGGAAGTCTACTACTCCAGCGACTCGTTTGACATGGTTCAATATGAACTTGAgAAACTCCCTCCGGATCTGAACCTTCTGGAGCTGGAGGAGTACAGAGATAAGCTGAAGCGACAGCAAGCAGCCGTGTCTAAACGAGTGGCGGACCTCATTCTGGAGAAACAGCCCTCCTATGTGAAGGAACttgagcgagtgacgtcactgcaAACCAATCTGCAGCTGGCTGCGGTCATCTGCACTAATGCACGAAGACAGCTTCGCTCTGCTAAAGAAGGTTTCACTGAAGCCAGTCTTGGGCTGTTAGCCAATCAGAGACGTCGACAGCTGCTGACAGGACTGTTGAAGTCTTTGAGGACCATAAAGACTCTGCAAAGAACTGATGTTCGACTGAGCGAAATGCTGGAGGAGGAGGACTATCCTGGCGCCATCCAGCTGTGTTTAGAATGCCAGAAAGCTGCCAGCACTTTCAAACACTACAACTGTATAAGTGAACTGAACTCCAAACTACAGGACACTCTGGAGCAAATCGAGGAGCAGCTGGATGTGGCTCTGTCCAAAACCTGCAAGCACTTCGATGTTTCTCACTACACCAAAGTTCAGCTGGCGTATAAACTCCTGGGCAAGACGCAGACGGCGATGGATCAGCTGCACATGCACTTCACCCAGGCCATCCACAACACCGTCTTCCAGGTGGTGCTGGGATACGTGGAACTCTGCGCCGGCAATGCAGACACCAAGTTCCAGAAGATGCAGTACAAAGACCTTTGCACGCACATCACCACGGACAGCTACATCCCCTGCCTGACTGACCTCTGCAAGGCCTTGTGGGAGGTGATGCTCAGTTACTATCTGACCATGCAGTGGCACGATGAGCACTACAAAGAAGAAGAGGCTAGTCCTGCAGCAGAAGACTCCGTCGCCGAAGGCTCAGACGAATCCACCGTGGGCCGCAGCTACGTGAAGAAGAAGCTTGAACACGGCTTAACGCGGATCTGGCAGGACGTCCAATTGAAAGTGAAAGCCTATTTGCTGGGAACTGACATGTCCAACTTCAAGTACGACGACTTCATTGTGGTTCTGGATGTTATCAGCAGGTTGATGCAGGTGGGAGAGGAATTCTGCGGCAGTAAGTCTGAGGTGTTGCAGGAGTCCATTAAGAGACAGAGCGTGAACTACTTTAAGAACTATCACAGAACTCGCCTGGAGGAGCTGCGAATGTTTCTTGAAAATGAAACGTGGGAATTGTGCCCTGTGAAGTCCAACTTCAGTATCGCCCAGCTCCACGAGTTTAAGTTCATGGGTCAGTGTCGTTCTCCTTCAGTGTCTCCCAGCAGGCAGCCAGAATCCACAGATCTGCTGGAGCTTTCTCTGTTCGAGCAGTACCTGGAGGGTGGAAACCCCTTCGAGATGCAGATAGACAACAAAGAAGAGGAGACTGAGGACGTCCTGGCTTCTAATGGGTATGAGTCAGATGAGCTGGAGAAGAGCGTATACCAAGAGTACGACAGTGACAGTGATGTACCCGAGGAGCTGAAACAGGACTACGTAGATGAACAGACAGGGGACGCTCCAGTGAAGAGCGTGTCCAGAGAGACACTTCGCAGCCGGAAGAGATCCGACTACAACCTGAACCGAGCCAATGCCCCCATCCTCACCAACACCACCCTCAACGTGATCCGCCTAGTTGGGAAATACATGCAGATGATGAACATCCTGAAGCCCATCGCCTTTGATGTCATCCACTGTGTGTCTCAGCTCTTTGATTATTACCTGTATGCCGTCTACACCTTCTTCGGCCGCAATGACATGTATGAATCCTCTGGCCTGGGTTTGATCAGCAGCAGATTGAGGACCACTCTCAGCCGAATCCAGGAGAGCCTAATAGACATGGAGTCTGGAGGTGAGAACCCAGGTCCTCATGCATCTCCTGAAGAAAGGAAAGAGAAAGTTCCCAGTCCTCATCTGAGTCAGCTGGTTATCCTGACTGCCACCGACACGCTGTACGGCCTGGCTGAGAGAGTCGTCGCCACTGAATCACTAGTTTTTCTTGCGGAGCAGTTTGAGTTTCTTCAGCCTCATCTGGACACCATGATGCCTTCAGCCAAGAAGCCGTTCCTGCAGCAGTTCTACTCACAGACTGTATCAACGGCCAGCGAGCTCCGCAAGCCCATTTACTGGATCGTGGCAGCCAAAGCCATAGATTATGAGCAGATGCTGCTGCTGATGGCTGGAGTGAAATGGGACATTAAAGAGATAATGTCACAGCACAACGTCTACGTGGATGTCCTTTTAAAGGAGTTTGAGAAGTTTAACCTGAGGCTGGGAGATGTGTCAAAGATCGTGCGGATTCCTCTGCCTGTGTCTAATGTGTTATGGGAGCACTGCATCCGTCTGGCCAACAGGACATTAGTGGAGGGCTATGCTAATGTGAAGAAGTGCAGTAATGAAGGACGAGCGCTGATGCAGCTGgacttccagcagttcctcatgAAGCTGGAGAAGCTCACCGACCTCAGACCCATTCCTGACAAGGAGTTTGTGGAGACCTACATCAAAGCATACTACCTGACTGAAAACGACATGGAGCAGTTTATCAAGAACCACAGGGAGTACTCGATGAAGCAGCTGACTAACCTGGTCAACGTCTGCCTCGGGTCCCACATCAACAAGAAAGCACGACAGAAACTCCTCGCAGCCATTGATGACATTGACCGGCCCAAAAGATAA
>TCONS_00028298
GAGTCTGGAGGTGAGAACCCAGGTCCTCATGCATCTCCTGAAGAAAGGAAAGAGAAAGTTCCCAGTCCTCATCTGAGTCAGCTGGTTATCCTGACTGCCACCGACACGCTGTACGGCCTGGCTGAGAGAGTCGTCGCCACTGAATCACTAGTTTTTCTTGCGGAGCAGTTTGAGTTTCTTCAGCCTCATCTGGACACCATGATGCCTTCAGCCAAGAAGCCGTTCCTGCAGCAGTTCTACTCACAGACTGTATCAACGGCCAGCGAGCTCCGCAAGCCCATTTACTGGATCGTGGCAGCCAAAGCCATAGATTATGAGCAGATGCTGCTGCTGATGGCTGGAGTGAAATGGGACATTAAAGAGATAATGTCACAGCACAACGTCTACGTGGATGTCCTTTTAAAGGAGTTTGAGAAGTTTAACCTGAGGCTGGGAGATGTGTCAAAGATCGTGCGGATTCCTCTGCCTGTGTCTAATGTGTTATGGGAGCACTGCATCCGTCTGGCCAACAGGACATTAGTGGAGGGCTATGCTAATGTGAAGAAGTGCAGTAATGAAGGACGAGCGCTGATGCAGCTGgacttccagcagttcctcatgAAGCTGGAGAAGCTCACCGACCTCAGACCCATTCCTGACAAGGAGTTTGTGGAGACCTACATCAAAGCATACTACCTGACTGAAAACGACATGGAGCAGTTTATCAAGAACCACAGGGAGTACTCGATGAAGCAGCTGACTAACCTGGTCAACGTCTGCCTCGGGTCCCACATCAACAAGAAAGCACGACAGAAACTCCTCGCAGCCATTGATGACATTGACCGGCCCAAAAGATAAATCACTGTCATCAAAAATACACCACAAAAGTCACACACACCTACACTGTTACGCGTCCCGTATCTGTCTTGCGTGGTCTGCAGTTTGTTTGTCAACCATGAAAACGTTTACGGTTTCTGTTTGCGTTTTGTTAGGAATGTAAGCAGGACGTGCTGTGACTACATATGAAGCGGCTGTAAAAGATAATGGGTAATGAAAGTGTTATCAGCATCACTTGAATCACAACATGAGTGAATGTCTCAGGCGCTGTTAAACCCTAATTTAAGCAGAGCTGTGGATGAGCAGCTGAATTTTTCCTTGTTGAGGAATATATGAGGGTTTTGTAGCATGAGGCTTTTTAATATGGTATAAAGACGtcctttaaagggacagtacactcaaaaatgaaaatgttgtcatttaatcATCTTCCACTTATTCCAAACTTGTATGGGTCACTttgtactgttgaacacaaaagtagatattctgGAAAATATTTgtaactggtagccattgacatctattTCATTGGGTGTTAATAGCTACCATTTTACAGCACAGTTttaaagagtaacttactaagTTTTGGATTTCACATTTTTGACTGAACTATCCTTTTCaaagaacactccactttttttggaaGTGGTTttgccatttttgaatccattcagccaatctccggaTCTCTCGGGAGCACtgttagtttagcttagcataaatcactgaatcagattaCACCACTAGCATCTCACCTCAATAATTCAAAAAGGATTTTTGATAAATTTCCTAATTTAAACTTGccttttctgtagttacattcTTTACTACTAAGATCAAAACTTTCAGTTTTTCTATTTTTGAGTCTTCGGGTCTgactggagcacttttagcttagcttagcttacatcattgaatcagattagaccattagtatTTTGCTCAAAAATTCAAAAAGGAGTTTTGATAAATTTCTTATTTAAAACTTGACTTTTTTGTAGTTACATTCTTTACAACTAAGATCAAAACTTTGCGTTTTACCATTTATGAGTCTCCAGGTCTGTTgggggcacttttagcttagcttagcttacatcattgaatcagattagaccattagcatctcgctcaaataATTCAAAAAGGAGTTTTGATTAAtgtcttatttaaagcttgactttacTGTAGTGACATGCTTTACTATTATTGAGTTTTACTAGTTTTGATTCTCAGGGTCTGGcttgagcacttttagcttagcttagcataaataattgaatc

Function


symbol description
vps50 Predicted to enable SNARE binding activity. Predicted to be involved in endocytic recycling. Predicted to act upstream of or within retrograde transport, endosome to Golgi. Predicted to be part of EARP complex. Is expressed in head and heart. Orthologous to human VPS50 (VPS50 subunit of EARP/GARPII complex).

GO:

id name namespace
GO:0042147 retrograde transport, endosome to Golgi biological_process
GO:0032456 endocytic recycling biological_process
GO:1990745 EARP complex cellular_component
GO:0000149 SNARE binding molecular_function

KEGG:

id description
ko04131 Membrane trafficking

ZFIN:

id description
ZDB-GENE-060503-325 Predicted to enable SNARE binding activity. Predicted to be involved in endocytic recycling. Predicted to act upstream of or within retrograde transport, endosome to Golgi. Predicted to be part of EARP complex. Is expressed in head and heart. Orthologous to human VPS50 (VPS50 subunit of EARP/GARPII complex).

RNA


RNA id representative length rna type GC content exon number start site end site
TCONS_00028296 False 1045 mRNA 0.51 12 40379771 40477359
TCONS_00028297 False 2898 mRNA 0.51 28 40379874 40685412
TCONS_00028298 True 2100 mRNA 0.41 6 40641338 40686675

Neighbor


gene id symbol gene type direction distance location
XLOC_014232 hepacam2 coding upstream 5343 40350468 ~ 40374428 (+)
XLOC_014231 fam133b coding upstream 31828 40335271 ~ 40347943 (+)
XLOC_014230 NA coding upstream 46677 40328712 ~ 40333094 (+)
XLOC_014229 cdk6 coding upstream 51222 40248697 ~ 40328549 (+)
XLOC_014227 BX510986.1 coding upstream 167579 40171960 ~ 40212192 (+)
XLOC_014234 NA coding downstream 5753 40692428 ~ 40736984 (+)
XLOC_014235 si:ch211-120e1.1 coding downstream 145818 40832493 ~ 40834956 (+)
XLOC_014236 gngt1 coding downstream 169859 40856534 ~ 40859468 (+)
XLOC_014237 zgc:85777 coding downstream 175178 40861853 ~ 40898600 (+)
XLOC_014238 CR749767.1 coding downstream 271825 40958500 ~ 40958616 (+)
XLOC_014224 NA non-coding upstream 313180 40057836 ~ 40066591 (+)
XLOC_014222 BX957260.1 non-coding upstream 410313 39927406 ~ 39969458 (+)
XLOC_014221 BX957260.2 non-coding upstream 504824 39874831 ~ 39874947 (+)
XLOC_014220 NA non-coding upstream 627597 39750058 ~ 39752174 (+)
XLOC_014243 NA non-coding downstream 501137 41187812 ~ 41191519 (+)
XLOC_014244 NA non-coding downstream 547133 41233808 ~ 41238528 (+)
XLOC_014252 NA non-coding downstream 1151076 41837751 ~ 41841201 (+)

Expression



Co-expression Network


Homologous


species gene id symbol gene type chromosome NCBI id location
bowfin (Amia calva) AMCG00021528 vps50 coding CM030130.1 CM030130.1 20577693 ~ 20589296 (+)