LOC110532125 (vps13d)


Basic Information

Item Value
gene id LOC110532125
gene name vps13d
gene type coding
species rainbow trout (Oncorhynchus mykiss)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_048573.1
NCBI id CM023227.2
chromosome length 79455637
location 42263238 ~ 42289818 (-)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome

Sequence

>XM_036988039.1
cactacagtgaagatggttaactttgttaaagcaaggcccatGAACTCTCGTGTactttctgcattatgcaatgatatcggcagcgaccatgtaacgcttttacagcATACGGAAGTGCGCTAATTATCAAGGGGAAAAGTATAGACAcgttttttgaattgagagacgagcttaaaatgttctttactgaccataattttcactttttTGTTCacttgctatctaactgggagtctcgtgagtgaaaacatccgaagctcatcaaagGTGGCCTGCCGGAGAACTTCCCTGTGTGTAAGGAGCTGCTTATTCCCCCTGGTACCCAGAACTATGTGGTGCTATACAACGCCAACAAACGCTTGTTCTGTCTCACCATCCACATCATCACAGGAGGCGCTCAAGATCCTCATCTTAGCGCCTTACTGGCTCTTCAACAAGACCGGGACCTTGTCGGATGGGTGGAGCAAGACCATCAACAACCGACATCAGAGCAAACGAGTACATTCGTTACCAGGGAGCCACCAGCGGAGAGCATCTGGTGGCCTGGAATCATGGATTGGCTCATGGTATCATCAACGTTTTGACCAGCGTCATCACGTCCACAGTGGAGGGGGTGAAGACCGAGGGAAGGGTCAGTGGCTTGTTCTCAGGCTTGGGGAAAGGCCTGGTTGGTATGGTAACCAAGCCGGTGGCTGTAGCCCTGGACTTTGACTCGGAGCCAGCACAGACGGCGCAAGACATGTCCAGCCTCAGTAACCACAGGTTGAGAGTGCTGCGGGTGAGGAAGCCGCGCTGCTGTAAGGGACCCCAGGGCCTGCAGGCCCGCTCCTCCTCCACCCAAGCCGACGGACAGTAGCAGCTCTTCCACCTCACTGACAACATCCACTCTGAGTTGTTCATGTGAAGAGCGAGAATCTTGCTGTGAAAATCTCTCAAGAAACCAACTATGCCAAGAGACTTTACTATGAGCAGCAACTTATGAGACTGAAGACTGCATTATATTGCACTCATAAATGACTCATGTAAAGAGTGGCACATACACATATTCTTCCTGTTTCTGCCCACTAAAGTATGGTCGTCTTTAATTGGTTGCGATAACGTCTGAAGATATGATCCActagggcagtggttcccaaactttttatagtcccgtaccccttcgaATATTCAACCTCCAACTGTGtaccctctagcaccagggtcagtgcactctcaaatgtttttgccatcattgtaagcctgccacacactatacgatacatttcttaaacataagaatgagtgtgagttttgcCACAACCTGG
>XM_036988036.1
cactacagtgaagatggttaactttgttaaagcaaggcccatGAACTCTCGTGTactttctgcattatgcaatgatatcggcagcgaccatgtaacgcttttacagcATACGGAAGTGCGCTAATTATCAAGGGGAAAAGTATAGACAcgttttttgaattgagagacgagcttaaaatgttctttactgaccataattttcactttttTGTTCacttgctatctaactgggagtctcgtgagtgaaaacatccgaagctcatcaaagGTGGCCTGCCGGAGAACTTCCCTGTGTGTAAGGAGCTGCTTATTCCCCCTGGTACCCAGAACTATGTGGTGCTATACAACGCCAACAAACGCTTGTTCTGTCTCACCATCCACATCATCACAGGAGGCGCTCAAGATCCTCATCTTAGCGCCTTACTGGCTCTTCAACAAGACCGGGACCTTGTCGGATGGGTGGAGCAAGACCATCAACAACCGACATCAGAGCAAACGAGTACATTCGTTACCAGGGAGCCACCAGCGGAGAGCATCTGGTGGCCTGGAATCATGGATTGGCTCATGGTATCATCAACGTTTTGACCAGCGTCATCACGTCCACAGTGGAGGGGGTGAAGACCGAGGGAAGGGTCAGTGGCTTGTTCTCAGGCTTGGGGAAAGGCCTGGTTGGTATGGTAACCAAGCCGGTGGCTGTAGCCCTGGACTTTGACTCGGAGCCAGCACAGACGGCGCAAGACATGTCCAGCCTCAGTAACCACAGGTTGAGAGTGCTGCGGGTGAGGAAGCCGCGCTGCTGTAAGGGACCCCAGGGCCTGCAGGCCCGCTCCTCCTCCACCCAAGCCGACGGACAGTAGCAGCTCTTCCACCTCACTGACAACATCCACTCTGAGTTGTGAGTCACACTCCTGCTCTGAGCTCCCAGAGTTAAGCCACTATCTGGCCAGTCACAGTGGCCAGTGTGTGCAGGATTTTGTTTccagcccagctctaacacacTTGATTCATCATAGTATTTAATTTAGACCACGATGAGTTGATGAGTCAGGTGGGTTAGTgatgggctggaacaaaagcctgctgAAGGTGTTTGAAAAAGACAGCTGAAGGTTTGGAGAAATAGCCATCTCTGATTAATATTGCGTCACATGGAAAAAAGTTTAGTTATATTTCGAATGAAATGTACGTTTAAGTTCATTAATACATATTTAGTATTTctagagtgagaaagagacatGAAATCCCTGGCACAGACGGGGCACTAGCCTGTATCCAGTATCTCTGCTGAGCCTGAGAGCATTTGTCACCTCACAGGCTAATAAATCCAGAGAGCCAGCAGAACCCTGTCTCTAGCCCCTTACCTCTGACCCTAGAGGTGTTAACCAGCCAAATGCTCAGCTCAGCCTCTGGGCTTTCTGGCCCACACTTCACTCTTCCAATGGGACTGCTGCTCACACCATGTTTGTTTACGttagcatgtgtgtgcatgtattttACACGGCTCATGCATCTGTGCTagggtatgtggcagggtctacagacagtcACGGAcgacaaagggaaaaccagacaCGTCGCGGACAcagacgtcttgcttccagacaagctaaacacctttcttcgcccgctttgatgataacacagtgccaccgacacggcccgctaccaaggactgtgggctctccttctctgtggccgacgtcAGTAAGACATTTACACGTGTTAAccttcgcaaggctgctggcccagacggcatccctagccgtgtcctcagagcatgcgcagaccagctggcaggagtgtttacggacatattcaatctctccctattccAGTCTGTTGTCCCTACTTGCTTCCAGaagtccaccattgttcctgtacccaagaaagccaaggtAACTGAACGAATTGACAATCGCCTCGTAGCACTCCTGTCATAATGAAGAGCATTAAGGACTCCCGAGTGGGTCAGCGGtgtaaggcactgtatctcagtgcaagtggcgtcactacagtccctgcttcgaatacaggctgtatcacatccggacgtgattgggagtcccatagggcggcgcacaactcgcccagcgtcgt
>XM_036988038.1
cactacagtgaagatggttaactttgttaaagcaaggcccatGAACTCTCGTGTactttctgcattatgcaatgatatcggcagcgaccatgtaacgcttttacagcATACGGAAGTGCGCTAATTATCAAGGGGAAAAGTATAGACAcgttttttgaattgagagacgagcttaaaatgttctttactgaccataattttcactttttTGTTCacttgctatctaactgggagtctcgtgagtgaaaacatccgaagctcatcaaagGTGGCCTGCCGGAGAACTTCCCTGTGTGTAAGGAGCTGCTTATTCCCCCTGGTACCCAGAACTATGTGGTGCTATACAACGCCAACAAACGCTTGTTCTGTCTCACCATCCACATCATCACAGGAGGCGCTCAAGATCCTCATCTTAGCGCCTTACTGGCTCTTCAACAAGACCGGGACCTTGTCGGATGGGTGGAGCAAGACCATCAACAACCGACATCAGAGCAAACGAGTACATTCGTTACCAGGGAGCCACCAGCGGAGAGCATCTGGTGGCCTGGAATCATGGATTGGCTCATGGTATCATCAACGTTTTGACCAGCGTCATCACGTCCACAGTGGAGGGGGTGAAGACCGAGGGAAGGGTCAGTGGCTTGTTCTCAGGCTTGGGGAAAGGCCTGGTTGGTATGGTAACCAAGCCGGTGGCTGTAGCCCTGGACTTTGACTCGGAGCCAGCACAGACGGCGCAAGACATGTCCAGCCTCAGTAACCACAGGTTGAGAGTGCTGCGGGTGAGGAAGCCGCGCTGCTGTAAGGGACCCCAGGGCCTGCAGGCCCGCTCCTCCTCCACCCAAGCCGACGGACAGTAGCAGCTCTTCCACCTCACTGACAACATCCACTCTGAGTTggtatgtggcagggtctacagacagtcACGGAcgacaaagggaaaaccagacaCGTCGCG

Function

symbol description
vps13d Predicted to be involved in mitochondrion organization; protein retention in Golgi apparatus; and protein targeting to vacuole. Predicted to be extrinsic component of membrane. Human ortholog(s) of this gene implicated in autosomal recessive spinocerebellar ataxia 4. Orthologous to human VPS13D (vacuolar protein sorting 13 homolog D).

NR:

description
vacuolar protein sorting-associated protein 13D-like

GO: NA

KEGG: NA

RNA

RNA id representative length rna type GC content exon number start site end site
XM_036988039.1 False 1305 mRNA 0.48 6 42263238 42289818
XM_036988036.1 False 2097 mRNA 0.50 5 42264371 42289818
XM_036988038.1 True 955 mRNA 0.52 6 42264889 42289818

Neighbor

gene id symbol gene type direction distance location
LOC110532120 LOC106572241 coding downstream 102664 42155085 ~ 42160574 (-)
LOC110532119 LOC106572245 coding downstream 121625 42125255 ~ 42141613 (-)
rnf207b LOC106572244 coding downstream 148873 42098270 ~ 42114365 (-)
LOC110533012 LOC106572332 coding downstream 175936 42085331 ~ 42087302 (-)
LOC110532116 LOC106572333 coding downstream 186389 42075577 ~ 42076849 (-)
LOC118966051 NA coding upstream 8133 42297951 ~ 42299962 (-)
LOC110532126 LOC106572238 coding upstream 23670 42313488 ~ 42341574 (-)
LOC110532127 LOC106572237 coding upstream 56064 42345882 ~ 42404462 (-)
LOC110532130 LOC106572235 coding upstream 146949 42436767 ~ 42484817 (-)
LOC110532134 LOC106572229 coding upstream 275581 42565399 ~ 42570961 (-)
G805538 NA non-coding downstream 26008 42236890 ~ 42237230 (-)
G805487 NA non-coding downstream 113236 42149803 ~ 42150002 (-)
G805483 NA non-coding downstream 117022 42145900 ~ 42146216 (-)
G805482 NA non-coding downstream 117843 42145078 ~ 42145395 (-)
G805481 NA non-coding downstream 118452 42144537 ~ 42144786 (-)
G805553 NA non-coding upstream 8 42289826 ~ 42290153 (-)
G805571 NA non-coding upstream 3134 42292952 ~ 42293579 (-)
G805597 NA non-coding upstream 42359 42332177 ~ 42332438 (-)
G805848 NA non-coding upstream 108973 42398791 ~ 42399144 (-)
G805871 NA non-coding upstream 144583 42434401 ~ 42436590 (-)
G804543 LOC106572259 other downstream 825267 41437030 ~ 41437971 (-)
G804255 NA other downstream 1277993 40984482 ~ 40985245 (-)
wdr6 wdr6 other downstream 1347264 40904738 ~ 40916073 (-)
G804307 NA other downstream 1350880 40862589 ~ 40912358 (-)
G806724 LOC106572208 other upstream 1042112 43331930 ~ 43339589 (-)
prdm16 prdm16 other upstream 1650748 43781726 ~ 44015554 (-)
tafa5l LOC106572193 other upstream 1958980 44247091 ~ 44292397 (-)
G807941 NA other upstream 2071598 44361416 ~ 44362166 (-)
G808375 NA other upstream 2344741 44634559 ~ 44636846 (-)

Expression


Co-expression Network