RNA id: XM_039786686.1


Basic Information

Item Value
RNA id XM_039786686.1
length 5412
RNA type mRNA
GC content 0.48
exon number 24
gene id vps39
representative True

Chromosome Information

Item Value
chromosome id NC_053131.1
NCBI id CM020928.1
chromosome length 36057207
location 9393774 ~ 9431047 (+)
genome version GENO_Pfluv_1.0_2020_eurasian_perch_Genome
species eurasian perch
(Perca fluviatilis)

Sequence

GTCAAACCCCATTCCCTCGCGCAGCCGTCGTCAACACAACTGAGGAAGTAACGAGAAGCTAACCTTGCAATTGAAAGCCGAATTGCTAGCGCCAATACAGTGTTTGGGAATTGTATTAAGTTAACCAAAGTTGACTTTGTCGTCAAAGTAACGGACTGCCTTTGTTCGGGTTTCACCTGGCATGGAGTGAAAGGGAAACAATGTTTGGGAGCCGTTGCTTGCTAACTTCCAAGCTAGCAGGCTAACGATCAGCTGTTGTTTTGGTCGGGGAGCTAGCTATCTGGCTAGCTGGCTAACAAGCCATACTGCATAGCTGCATAGCGTTACAGAAGTCTGCGATACCAGGTTTGCCACATCAGATTTCCTCATTTCCTGTCGGAACACTTGAACTGCTAGGACGGTTAATGGCGACAAATAAAGGCGTCCCACCCTGACAGACTTATCAGCGGTTAGTCAGTCAGCTGTTGTACGGGCAGGCGTCAACTCCCGTGTGGGATCGATCCATCCATCAGAGGGGTCTGTAATTGAATCAGCAACATTGCTTCAAGATGCATGACGCGTATGAACCGGTGCCTATTTTGGAGAAGCTTCCTCTTCAGATTGACTGTCTCGCGGCCTGGGAGGACTGGCTGCTTGTGGGAACAAAGCCAGGGCATCTTCTTCTCTACCGAATAAAGAAGGATGCAGGCACCAACCGTTTCGAGGTGACACTGGAAAAATCCAATAAGAACTTCTCAAAGAAGATTCAGCAGCTGTACGTTGTCTCACAGTACAAAATTCTTGTCAGTCTTCTAGAGAACAACATCCACGTCCATGACCTCCTCACCTTCCAACAGATCACCGTAGTGTCCAAAGCCAAAGGAGCCACGCTCTTCGCCTGTGACCTGCAGCAAACCAGCGCAGGAGAGGAAAGGTTGAGAATGTGTGTCGCAGTGAAAAAGAAGCTCCAGCTGTATTACTGGAAGGACCGAGAGTTCCACGAGCTGCAGGGGGATTTTGGTGCACCAGACATTCCAAAGTCCATGGCTTGGTGTGAAAACTCCATATGTGTTGGTTTCAAGCGAGACTATTACCTCATTCGGATGGATGGCCGTGGCTCCATCAAGGAGCTCTTCCCCACTGGGAAACAGTTGGAGCCTCTGGTTGCCCCACTGGCTGATGGGAAGGTGGCTCTTGGCCAGGATGACCTAACTGTAGTGCTTAATGAAGAGGGCGTTTGCACCCAGAAGTGTGCCCTGAACTGGACAGACATCCCTATAGCAATGGAGCACCAGCCTCCGTACATCATAGCTGTGCTCCCTCGGTACGTGGAGATCCGGACGTTTGAGCCGAGGCTGCTGGTGCAGAGTGTGGAGCTGCAGAGGCCGCGCTTCATCACCTCAGCAGGGCAAAACATTGTGTACGTTGCCAGCAACCACTTTGTGTGGCGCCTGGTGCCCGTGTCAATAGCCACCCAGATCCGACAGCTTCTTCAGGACAAGCAGTTTGAGCTGGCCCTGCAGCTGGCGAAGATGAAGGATGATTCGGACGGCGATAAGAAGCAGCAGATACATCACATCCAGAATCTCTATGCCTTCAATCTGTTTTGCCAGAAGAGATTTGATGACTCCATGCAGGTGTTTGCCAAACTGGGCACAGATCCCACCCATGTGATTGGCCTGTACCCAGACCTGCTCCCGTCGGACTACCGCAAACAGCTGCACTATCCTAACCCTCTGCCTACTCTGTCCGGGGCAGAGCTGGAGAAGGCTCATCTCGCTCTCATCGATTACCTcacccagaaACGCAGCCACCTGGTGAAACAGCTGAATGACTCTGACCCTTCTACAACGTCTCCGCTCATGGAGGGCACGCCTACTATTAAAAGCCGCAAAAAGCTCCTGCAGATCATCGATACCACCCTGCTGAAATGTTACCTGCACACCAACGTGGCCCTGGTGTCGCCTCTCCTTCGTCTGGAAAACAACCACTGCCACATCGAGGAGAGCGAGTACGTCCTGAAAAAGGCCCATAAGTACAGCGAGCTCATTATTCTCTATGAGAAGAAAGGTCTGCACCAGAAAGCTCTGCAGGTGCTGCTGGACCAGTCCACCAAGGCCAACTCTCCACTGAAGGGCCATGAGCGAACGGTGCAGTACCTTCAAAGACTGGgagtggAGAATTTGGGAATAATCTTTGAGTTTTCTCCCTGGGTGTTGAAGATCTGTCCTGAGGATGGCTTGAAGATCTTCACCGAGGACCTGACAGAGGTGGAGACTCTGCCCAGAGACAAGGTGCTGAACTTTCTGAAGGAGGGCTTTAAGGAGCTCGCCATCCCATATTTGGAGCACATCATTTACGTGTGGGATGATAAGGGCCCAGAGTTTCACAATGTGCTGATCCAGCTCTACCTGGAGAGGGTTCAAGGCCTCATGAAACAGTACCTCAACTCACTGCCAGAAGGAGTTCCAGCTGTTGCTGCGGGGAAGGAGGAAGGTGATCTGGGAGAGTTCAGGAACAAGCTACTGTCCTTCCTGGATATTTCTACCAGCTATGAGCCAGCCAGACTCATCAGTGACTTTCCCTTTGACGGTCTGCTGGAGGAACGGGCTCTGCTGCTGGGTCGGATGGGTAAACACGAGCAGGCGCTCTTCATCTATGTGCACATCCTGAGAGACACGCGCATGGCTGAAGAATACTGTCACGGCCATTACAACAGTTTAGTCGAAGGGAATAAAGATGTTTATCTGTCCTTGCTGCGAATGTACCTGTCACCTCCCGACGTCCACTGCCTGCGGCCCATCAAGATGGAGCTGTCAGAGCCTCAGGCCAACCTGCAGGCAGCCCTGCATGTCCTGGAACTGCACCACAGCAAACTCAACACCACCAAGgCCATCAATCTGCTCCCAGCAAACACCCAGATCCGAGAGATCCAGGTGTTCCTGGAGAGCGTCCTGGAGGAGAGGGCGCAGAGGAAACGCTGCAACCAGGTGCTGAAGAGTCTGCTGCAGGCCGAGTTCCTCAGGGTGCAAGAGGAGCGAATCTTCCACCAGCAGGTTAAATGTGTCATTACGGAGGAGAAGACCTGCAGAGTCTGCAAGAAGAAAATAGGAAACAGTGCGTTCGCCAGGTATCCCAACGGCGTGGTGGTGCATTACTTCTGCTGCAAAGACCGCAGCGCGTGTCCCACCGAGCAGTAACCGCTCGCCACCCTGACGACAACTTGTCTACTCGTTAATaatcccctctccctctccgtgGATGGCAACGCTGGGACACCTTTGAACTAGAAATGCAATCGGAAGGTCAAAGGATGCTGGACTTAATTGCCAGGCTGTGGCCCCCAACAGAACTACAAGTGCAGCCGTTGCGCGGGCACAGTTGTTGTCACGCTCTAGCCGCTGAGCAGAACAAGACCTCTCTCTGAAATTCAAAGGCTGAgactttcctttctctctgtgcATGAAGTAGCAGGAGGAATGTCCCGGGTCGCTCAacaggagaggggggggagagaaatGAAGAGAACCGAGTGGGTTAGAGCGTgacattttgaagaaaaaaaaaaaaggcacgcGTCACTGTAACACTAGAAGGGATTCACTTCCCTTCGCCTCGGAAGAAAACGGGCACTATCGACAGACgccacagaggaagaggagttgtTGCTCGTCCTCACCGTGAGATGATCACAAGCCttggttttaaattttttttcccctcccttcACCGTCTACCACTCCTCCTGTTCGACTGGGTGAGGCCTGAAACGCCGCTTGATACGCCGCATACGCTCTGCAGGAGTCCAGTTAAATGCCTTGTGTGACTCTGAAGATTGTACTCACAGTGAAGTCACATGTCTGTCATGATTTGCGCTAGCATGTGCCGGTACTGACTTAGCAAAACAGCGTTCTTCTTACACTGTGTTTGactgttgttgtattttttttttattcaaacgtTTAACTAACATTATTCACAGCGGTGTTCTTTTCCCCATTTAGTGTCTTTACAGTGAGCGAATGATTTCTACCAGACATTATGCTCtctttaatgcttttttttttttttttttaaaagcactcATCTGTCtcatttgtattcatttttttgttttatgtttttctctCCCAGACGTTAAAGGTTTCTCAAGTAGAATCATTTAAAGTGAGACTGTGTAACTGTGTAACAGCAGCCGAGGCGGCCACAAGTGGCAATTACAGAATAATTGCATTAACCCTACATTTCCCTGTTGCTTTAAACACATCATTGTAGAGCTGCCGTTACTAGccaattagttgattaatctgcCACTATTTCGATAATCATTTgagtcattttctttttctcaaaaaTGTCCAAATTCGCTGGttctagcttctcaaatgtgaggatttgcttcTTTTCTTCATCAGATTGTGACAGTCGATTACATTTCTTATAAAATAAGCAAATTGAAGAAGTCACCGTGAGCTTGGAGGAATTGCTTTGTGTTTAACATTTTACAGACTTAACGATTAATCGAGTAAATAGCAGCAGCCCTACATCGCTGTGACAGTGACACACTGTTACAGGAGCACAAGTGGAGATGAgtctgctaacattagccaccgtTAGCCACTGATCATACCAGATCATGTCAGGCTGCAGCAGCAAaacaagctgtgtgtgtgtgtgttaaactgAGCAAGGGTGTGTTTTATCGGTTTTGAATTCACCTTTTGATTTGTAATATTTAGTTATTTCTTTCCAAAGTTATACAGTCTCACTCTAAGACGGATCACAAAGTTGCAGCACTTTAAAAGTGGATGGATgtcctgttttatttattgtctaATCACACATCTGAGTTACGAGAACTGGACGTAATATGAATGACGTGGAAGGTATGATTGATCTGTGCATTTATAATAGCAATATTGTTATGAAATGGGTCTGTTTACTGTCCGCCTGGGAGGTAATTCAAGAAGCAGGACTCCCCAGtttattgaaattgaaataaaagcaaTGAATGTACGTTTTTAGACTGAGTTGGAGTCCTCAATATGGACACTCTGGACAGTGGACTTGCATGACTTAAACTTGTCTTTTTAACCGCTAAGTCTTGCAACCTTTTTAAGTTTTCCCACAGGTAGTCGCTTTATCTTCATCTCCTGCGCCTTGAAATACCCCTCATCCCCACATCCTCCTCTTCTGCTCTTTAAAAGTTTGCACACATTGCACTCTGCTAAGacatttctgaaatgttgtgtggTTTTTTTCTCGTGGGAACATTTGTCCCACTGTGTGTATACTGTGTAAAGACTGAGAGTGTTAATGACAAATTCCTTCCTGAAGTTATTTGATTCTAAGGGGCGACCCAGCAGGTACCATATGTACGTATATGACTGTCTGTTTGGCTTTAATCAGTAAATAAAGAAGCATTTCCACTca

Function

GO:

id name namespace
GO:0006886 intracellular protein transport biological_process
GO:0016192 vesicle-mediated transport biological_process
GO:0050790 regulation of catalytic activity biological_process
GO:0048066 developmental pigmentation biological_process
GO:0001654 eye development biological_process

KEGG:

id description
K20183 VPS39, VAM6; Vam6/Vps39-like protein vacuolar protein sorting-associated protein 39

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU272566 lncRNA upstream 49781 9336645 ~ 9343993 (+) True G201173
TU272568 lncRNA upstream 62941 9329485 ~ 9330833 (+) True G201175
TU272520 lncRNA upstream 119797 9268917 ~ 9273977 (+) True G201134
TU272414 lncRNA upstream 174119 9218738 ~ 9219655 (+) True G201056
TU272382 lncRNA upstream 217808 9165123 ~ 9175966 (+) True G201026
TU272641 lncRNA downstream 67449 9498496 ~ 9498783 (+) True G201239
TU272652 lncRNA downstream 131631 9562678 ~ 9612629 (+) True G201242
TU272656 lncRNA downstream 155913 9586960 ~ 9590784 (+) True G201246
TU272657 lncRNA downstream 155913 9586960 ~ 9589499 (+) False G201246
TU272658 lncRNA downstream 160137 9591184 ~ 9597003 (+) False psen1
XM_039786685.1 mRNA upstream 2308 9371102 ~ 9391466 (+) True LOC120549640
XM_039786559.1 mRNA upstream 69089 9307844 ~ 9324685 (+) True znf106a
XM_039786558.1 mRNA upstream 91505 9296321 ~ 9302269 (+) True pacc1
XM_039785405.1 mRNA upstream 163534 9224142 ~ 9230240 (+) True hhipl2
XM_039785821.1 mRNA upstream 187245 9192950 ~ 9206529 (+) True LOC120549154
XM_039786688.1 mRNA downstream 11501 9442548 ~ 9497538 (+) True galnt16
XM_039786689.1 mRNA downstream 12330 9443377 ~ 9497538 (+) False galnt16
XM_039785881.1 mRNA downstream 70614 9501661 ~ 9552850 (+) True numb
XM_039785885.1 mRNA downstream 70614 9501661 ~ 9552850 (+) False numb
XM_039785887.1 mRNA downstream 70614 9501661 ~ 9552850 (+) False numb
TU272417 other upstream 172472 9220641 ~ 9221302 (+) True G201057
XR_005637554.1 other upstream 2493430 6900139 ~ 6900344 (+) True LOC120550068
XR_005637532.1 other upstream 2499352 6894216 ~ 6894422 (+) True LOC120550044
XR_005637539.1 other upstream 2504857 6888711 ~ 6888917 (+) True LOC120550052
XR_005637535.1 other upstream 2506218 6887350 ~ 6887556 (+) True LOC120550047
TU272715 other downstream 277817 9708864 ~ 9817625 (+) True G201287
TU272771 other downstream 559525 9990572 ~ 10007687 (+) True smoc1
unassigned_transcript_1139 other downstream 598949 10029996 ~ 10034827 (+) True LOC120549541
unassigned_transcript_1140 other downstream 599513 10030560 ~ 10031384 (+) True LOC120549542
unassigned_transcript_1141 other downstream 609096 10040143 ~ 10040762 (+) True LOC120548903

Expression Profile