upf3a (upf3a,LOC104960519)


Basic Information

Item Value
gene id upf3a
gene name upf3a,LOC104960519
gene type coding
species eurasian perch (Perca fluviatilis)
category of species economic fish

Chromosome Information

Item Value
chromosome id NC_053123.1
NCBI id CM020920.1
chromosome length 39440604
location 23679658 ~ 23689877 (+)
genome version GENO_Pfluv_1.0_2020_eurasian_perch_Genome

Sequence

>XM_039818654.1
AGTACACGGTGACTTAACACGGGcaagagggagatggagagaaatgAGGTCTGAAAAGGACCAAATGACCGTGGGCAAGGAGAAAAGCGTCGTTGAGATACAATTTAGAGACATCCCGAGAGAACAGGAAAACATCCCTGGCAACTTCAAGccgaaagaagagaagaaagaggtTTTTACTAAGGTGGTGATTCGAAGGCTTCCACCTAACCTGTCAAAGGACCAGCTAGAGGAACAGCTCAGTCCGCTTCCATCCTATGACTATTTTGAGTTCTTTCCCGCTGATCAAAGTCTTTCTCCCCATTTGTTCTCCAGAGCATATATcaattttaaaaacaatgaAGATATCCTTCTGTTCAGGGACCGATTTGATGGCTACGTCTTCATTGACAACAAGGGCCAAGAATATCCTGCAGTGGTGGAGTTTGCTCCCTTCCAGAAAATCTCAAAgaagaagttaaaaaagaaagatgcCAAATCCGGGAGCATTGAAGAAGACCCAGAGTATAAGCGGTTCTTGGAGAATTACTCCTGTGATGAAGAGAAGTCAATGGCCAACCCTGAGACTCTGCTAGGAGAGATAGAGGCCAAGACCAGAGAGCTCATAGCCAAACGGACAACACCACTGTTGGAGTacattaaaaataagaaaattgagaaacagAGAataagagaggagaagagagaagagaggagaagaagagagctTGAAAAGAAACGGcaaagggaggaggagaagagaaagcGACGAGAGGAGGAGAGACGCAAACGAAAAGAGGCAGATAAGCAGAAGAAATTGTCTGATAAAGACATCAAAATTAAGCTCCTGAAGAAGAGTGACAGGGACGATGACGTGGACTCAGACCGAATGAAGGACAAAAGTGACATcggggagacagacagaggcaaaTGGGAGAAAGCTGGAGGACAAACAAAGTCGAAGGACCCCAAAGAAAAAAGTCTGCCTGAGAGTGAAAAGGAGCAGAGAGAGCAGCACAGCCGCAGACAAAGAGATAAGGATCACCGTGGAAAAGATGAAGAGAGGAAACGACAGCGACACCATTATGAGTTTGACAAGTTTATGCGCCGCAAAGATGAGACCAAATGGGGGAAAGGTTACTGCCAGGACAGAGCCAAGAAAGAGGGGCATCATCATGGCTATTCTTACTGTCCTGACATTGGAGACAAACTAGGaaaggaggacagggaggaCCTGGGTAACAGGAAGGAACGCCTCCGAAACAAGGTGAGCGAGAAGGACCGTCCAGCCATGCAGCTCTATCAGCCAGGCGCACGCAACAGGAAGCGCATGAGCTCAGCAGGCAAAGGCTATGACTGCATCCCCTCACCTGAATCCGGGACAGAGCATTGCTATGAGGCTGTCACTATGGCGACGGGGCTGGAGAAGGGGTTCGAGAAAAGCAAAGATGAACAGTGAGCAGTCTGGATGTTTAtcgaaaatacaaataaatgattCAGCTTAAATTGATGGTGGGTGACAGGTTTGACAGTTTATCATTgagcttttaaaaaagaaagaaaactgtCTTTTAGTCATTTTCATCTGTACTGGATGGAACCGATTTCAGAGCCTTGAATGTTGGTTaaggtttttgttttgctgGAGCATGAACGTTTTAAGTACACACTAAATATGTTACTTGTCTCACTGTTTAATACTCAAAGAATCCTTGGAATGAACCATGCGAGACTAAGAACAGGGCTAAACAATAATAGTTAGCTTTATGACAGCACAACAGTCAGTGTCAGACCATGCAGTGTCATTCCTTTTGGTCATCGTGTTTTGGAAGTGTGTCCCTGTCAAAGGCAGCTCACCTGTGGTATCCTTCAACAATGTTCTGGTGAAACCATGATCTCATCCTCTGCAACCGGTCTTGTTACTAAGCGTTTGTAGACTCTGCTGAACCTGGATGTTTTTAATAATCAAATagattttattaaaatgaaatataatgTAAGTAGAACTTACAAACAATGGATGTAGAAAAAGTCACAGAGGAAATCCTGTGTGTATTTTCGTGTGTAAAGGTGAGCGAATGAGAGGGGGTAGGAGTTATTATTGATAAAGAGAGGACAATGTTTTACCGCTTTTTCGTAGTTTCTATGCATCTTATTACATGTGGTCCAGCTTATTCTAAGGTGTGGTCCAACAGAGACAATAATTTATTTGTGAGCAAAGCTTTGTACACGATCACCCATGAGCCAAGAAGAACACGTTCTCTACATTTCTATAAAGTATTTCCTAGAAAGAAGATGTAAAGTTGCAAAGCATGACACCGGTTAATGAAAACAATTAATTTTCTATGCTGTGTGCATGGTTTTTCTATTAATTCTGTCaagtaaatgtaaaagaaaaatccaCAAATATTGATAAAGTAATATGTCTTTTTAA
>XM_039818655.1
AGTACACGGTGACTTAACACGGGcaagagggagatggagagaaatgAGGTCTGAAAAGGACCAAATGACCGTGGGCAAGGAGAAAAGCGTCGTTGAGATACAATTTAGAGACATCCCGAGAGAACAGGAAAACATCCCTGGCAACTTCAAGccgaaagaagagaagaaagaggtTTTTACTAAGGTGGTGATTCGAAGGCTTCCACCTAACCTGTCAAAGGACCAGCTAGAGGAACAGCTCAGTCCGCTTCCATCCTATGACTATTTTGAGTTCTTTCCCGCTGATCAAAGTCTTTCTCCCCATTTGTTCTCCAGAGCATATATcaattttaaaaacaatgaAGATATCCTTCTGTTCAGGGACCGATTTGATGGCTACGTCTTCATTGACAACAAGGGCCAAGAATATCCTGCAGTGGTGGAGTTTGCTCCCTTCCAGAAAATCTCAAAgaagaagttaaaaaagaaagatgcCAAATCCGGGAGCATTGAAGAAGACCCAGAGTATAAGCGGTTCTTGGAGAATTACTCCTGTGATGAAGAGAAGTCAATGGCCAACCCTGAGACTCTGCTAGGAGAGATAGAGGCCAAGACCAGAGAGCTCATAGCCAAACGGACAACACCACTGTTGGAGTacattaaaaataagaaaattgagaaacagAGAataagagaggagaagagagaagagaggagaagaagagagctTGAAAAGAAACGGcaaagggaggaggagaagagaaagcGACGAGAGGAGGAGAGACGCAAACGAAAAGAGGCAGATAAGCAGAAGAAATTGTCTGATAAAGACATCAAAATTAAGCTCCTGAAGAAGAGTGACAGGGACGATGACGTGGACTCAGACCGAATGAAGGACAAAAGTGACATcggggagacagacagaggcaaaTGGGAGAAAGCTGGAGGACAAACAAAGTCGAAGGACCCCAAAGAAAAAAGTCTGCCTGAGAGTGAAAAGGAGCAGAGAGAGCAGCACAGCCGCAGACAAAGAGATAAGGATCACCGTGGAAAAGATGAAGAGAGGAAACGACAGCGACACCATTATGAGTTTGACAAGTTTATGCGCCGCAAAGATGAGACCAAATGGGGGAAAGGTTACTGCCAGGACAGAGCCAAGAAAGAGGGGCATCATCATGGCTATTCTTACTGTCCTGACATTGGAGACAAACTAGGaaaggaggacagggaggaCCTGGGTAACAGGAAGGAACGCCTCCGAAACAAGGACCGTCCAGCCATGCAGCTCTATCAGCCAGGCGCACGCAACAGGAAGCGCATGAGCTCAGCAGGCAAAGGCTATGACTGCATCCCCTCACCTGAATCCGGGACAGAGCATTGCTATGAGGCTGTCACTATGGCGACGGGGCTGGAGAAGGGGTTCGAGAAAAGCAAAGATGAACAGTGAGCAGTCTGGATGTTTAtcgaaaatacaaataaatgattCAGCTTAAATTGATGGTGGGTGACAGGTTTGACAGTTTATCATTgagcttttaaaaaagaaagaaaactgtCTTTTAGTCATTTTCATCTGTACTGGATGGAACCGATTTCAGAGCCTTGAATGTTGGTTaaggtttttgttttgctgGAGCATGAACGTTTTAAGTACACACTAAATATGTTACTTGTCTCACTGTTTAATACTCAAAGAATCCTTGGAATGAACCATGCGAGACTAAGAACAGGGCTAAACAATAATAGTTAGCTTTATGACAGCACAACAGTCAGTGTCAGACCATGCAGTGTCATTCCTTTTGGTCATCGTGTTTTGGAAGTGTGTCCCTGTCAAAGGCAGCTCACCTGTGGTATCCTTCAACAATGTTCTGGTGAAACCATGATCTCATCCTCTGCAACCGGTCTTGTTACTAAGCGTTTGTAGACTCTGCTGAACCTGGATGTTTTTAATAATCAAATagattttattaaaatgaaatataatgTAAGTAGAACTTACAAACAATGGATGTAGAAAAAGTCACAGAGGAAATCCTGTGTGTATTTTCGTGTGTAAAGGTGAGCGAATGAGAGGGGGTAGGAGTTATTATTGATAAAGAGAGGACAATGTTTTACCGCTTTTTCGTAGTTTCTATGCATCTTATTACATGTGGTCCAGCTTATTCTAAGGTGTGGTCCAACAGAGACAATAATTTATTTGTGAGCAAAGCTTTGTACACGATCACCCATGAGCCAAGAAGAACACGTTCTCTACATTTCTATAAAGTATTTCCTAGAAAGAAGATGTAAAGTTGCAAAGCATGACACCGGTTAATGAAAACAATTAATTTTCTATGCTGTGTGCATGGTTTTTCTATTAATTCTGTCaagtaaatgtaaaagaaaaatccaCAAATATTGATAAAGTAATATGTCTTTTTAA

Function

symbol description
upf3a Predicted to enable telomeric DNA binding activity. Predicted to be involved in positive regulation of translation. Predicted to act upstream of or within mRNA transport and nuclear-transcribed mRNA catabolic process, nonsense-mediated decay. Part of protein-containing complex. Orthologous to human UPF3A (UPF3A regulator of nonsense mediated mRNA decay).

NR:

description
regulator of nonsense transcripts 3A-like isoform X6

GO: NA

KEGG:

id description
K14328 UPF3, RENT3; regulator of nonsense transcripts 3

RNA

RNA id representative length rna type GC content exon number start site end site
XM_039818654.1 True 2413 mRNA 0.43 10 23679658 23689877
XM_039818655.1 False 2401 mRNA 0.42 10 23679658 23689877

Neighbor

gene id symbol gene type direction distance location
cdc16 cdc16,LOC102786741 coding upstream 2383 23663340 ~ 23677275 (+)
cfap97d2 NA coding upstream 16467 23657254 ~ 23663191 (+)
itgbl1 itgbl1,LOC102787049 coding upstream 140994 23494941 ~ 23538664 (+)
zic2a zic2 coding upstream 431998 23243632 ~ 23247660 (+)
clybl clybl coding upstream 457417 23159965 ~ 23222241 (+)
p2ry8 p2ry8,gpr82,LOC103134757 coding downstream 959 23690836 ~ 23695194 (+)
asmtl NA coding downstream 5510 23695387 ~ 23703927 (+)
ppp2r3b ppp2r3b,LOC100705877,LOC102783484,LOC107099188,LOC102198241 coding downstream 215259 23905136 ~ 23929409 (+)
usp9 usp9x,LOC104960511,LOC100693451 coding downstream 289860 23979737 ~ 24028770 (+)
itga4 itga4 coding downstream 377393 24067270 ~ 24089428 (+)
G126463 nalcn non-coding upstream 279272 23399891 ~ 23400386 (+)
G126447 NA non-coding upstream 326838 23352577 ~ 23352820 (+)
G126439 zic5,LOC102789084 non-coding upstream 442835 23232867 ~ 23236823 (+)
LOC120569671 NA non-coding upstream 710488 22966626 ~ 22969170 (+)
G126358 NA non-coding upstream 881346 22797901 ~ 22798312 (+)
G126515 NA non-coding downstream 14508 23704385 ~ 23704642 (+)
G126516 NA non-coding downstream 15066 23704943 ~ 23705702 (+)
G126519 NA non-coding downstream 20526 23710403 ~ 23711118 (+)
G126520 NA non-coding downstream 23611 23713488 ~ 23713977 (+)
G126563 NA non-coding downstream 256267 23946144 ~ 23947968 (+)
dachd LOC107389725,LOC105927577,LOC103357501,LOC103134744 other upstream 579575 22978602 ~ 23100083 (+)
G126363 lmo7 other upstream 864556 22807193 ~ 22815102 (+)
fbxl3a fbxl3 other upstream 941005 22730923 ~ 22738653 (+)
LOC120569986 LOC103372298,LOC100698342,LOC102199663,LOC102299751,LOC101469554,LOC102782232 other upstream 1987854 21655126 ~ 21691804 (+)
sox1a LOC103372296,LOC101481640,LOC100691128 other upstream 2044901 21619348 ~ 21634757 (+)
cwc22 cwc22 other downstream 494072 24183949 ~ 24199835 (+)
sestd1 sestd1 other downstream 587280 24277157 ~ 24298218 (+)
fzd5 LOC104950716,LOC108238837 other downstream 682594 24372471 ~ 24394985 (+)
cacnb4a cacnb4 other downstream 1940230 25630107 ~ 25664427 (+)
G127165 LOC100691947,LOC102776592,LOC101469272,LOC102213137 other downstream 2427111 26116988 ~ 26129879 (+)

Expression


Co-expression Network