RNA id: XM_039816510.1


Basic Information

Item Value
RNA id XM_039816510.1
length 5337
RNA type mRNA
GC content 0.50
exon number 24
gene id LOC120568804
representative True

Chromosome Information

Item Value
chromosome id NC_053122.1
NCBI id CM020919.1
chromosome length 39550354
location 34721550 ~ 34743010 (+)
genome version GENO_Pfluv_1.0_2020_eurasian_perch_Genome
species eurasian perch
(Perca fluviatilis)

Sequence

ggaaacgtAACTTGCGGGGGAGAAGACAAACGGAATGCAGCCGTAGTCGAGGCTGTCTCTCACCACCAGTGTTTGTAATTTTTTCATCTGTGCTGTGTCTCAGTTATTTAGTTTCTTCTGGAATAGCAACAGTTTGTGGATTTTTCGTCGGGGCGGGTAAATACCGTTAATAAGAAGGCAACAACATGAGTGTCGAGGCGTACGGGCCGAGCTCGCAGACTCTAACGTTCCTCGACACCGAGGAAGCCGAGCTACTGGGAGCGGACACCCAGGGCTCCGAGTACGACTTCACCGATTTTACCCTGCCGAGCCAGACCCAGACTCAAGGCCAAACCCAGAGTCAGCTGGATAACCAGGTTAATGGCCCTGACGGCATGCTACAGAATGGAGAGGACTCTGTGGTAAAAGCCAGTCAGCTGCTGGCAGAGTTGAACtttgaggaggatgaggaggacaCCTACTACACCAAGGATCTCCCTGTACATGCATGCAGTTACTGTGGCATTCATGATCCCGCCTGTGTGGTCTACTGCAACACCAGCAAGAAGTGGTTTTGTAATGGCCGTGGAAACACATCCGGCAGCCACATTGTAAACCACCTGGTGAGAGCAAAGTCCAAGGAGGTGACCCTGCATAAAGATGGCCCTCTGGGGGAAACGGTACTGGAGTGCTACAACTGTGGCTGTCGCAATGTCTTCCTTCTGGGCTTCATCCCTGCCAAAGCTGACTCGGTAGTGGTGTTACTATGCAGGCAGCCATGTGCCAGCCAGAGCAGCCTGAAGGACATCAACTGGGACAGCTCCCAGTGGCAGCCCCTCATCCAGGACCGCTGCTTCCTGTCCTGGCTGGTGAAAATCCCTTCAGAGCAGGAGCAGCTCAGGGCTCGTCAGATCACCGCCCAGCAGATCAACAAGCTGGAGGAACTCTGGAAGGAAAATCCCACTGCGACCCTGGAGGACCTGGAGAAGCCTGGTGTGGATGAGGAGCCCCAGCATGTGCTGCTCCGCTATGAGGATGCCTACCAGTACCAGAACATCTTTGGTCCTCTCGTCAAGCTGGAGGCTGACTACGATAAGAAACTCAAAGAGTCTCAgACACAAGACAACATTACTGTCAGATGGGACTTGGGCCTGAATAAAAAGAGGATTGCTTATTTCACTCTTCCCAAGACAGACTCTGATATGCGACTGATGCAGGGAGATGAAATTTGCCTGAGGTACAAAGGAGACCTGGCCCCTCCATGGAAAGGCATTGGACATGTCATCAAAGTCCCTGATAACTATGGAGATGAGATTGCCATAGAGCTAAGGAGCAGTGCCGGGGCTCCAGTGGAGATCCCCCACAACTTTCAAGTCGACTTTGTGTGGAAGTCCACTTCCTTTGACAGGATGCAGAGTTCCCTGAAGACGTTTGCCGTGGATGAGACTTCAGTGTCGGGTTACATCTACCACAAACTGCTGGGACATGAAGTAGAGGATGTGGTCATCAAGTGCCAGCTGCCCAAACGCTTCACCGCTCAAGGCCTGCCTGATCTTAACCACTCACAGGTGTATGCTGTGAAGACAGTGCTGCAGCGTCCTCTCAGTCTGATCCAGGGTCCTCCTGGCACAGGGAAGACGGTAACCTCTGCCACCATCGTCTACCACCTGGCCAGACAGGGCAACGGGCCGGTGCTGGTGTGTGCTCCCAGTAACATTGCCGTCGACCAGCTGACAGAGAAGATCCACCAGACAGGCCTCAAGGTGGTGAGGCTGTGTGCCAAGAGCAGGGAGGCTATCGACTCGCCTGTGTCCTTCCTGGCTCTGCACAACCAGACCCGTAACATGGACAGTATGCCAGAACTTCAGAAGCTCCAGCAGCTGAAGGACGAGACTGGAGAGCTGTCTTCCTCAGACGAGAAGCGCTACAGAGCTCTGAGACGCACCGCTGAGAGGGAGCTGCTTATGaatGCCGATGTGATCTGCTCTACCTGTGTTGGGGCGGGGGATCCTCGTCTGGCCAAGATGCAGTTCCGCTCAATCCTGATTGATGAGAGCACCCAGGCCACCGAACCAGAGTGCATGGTGCCTGTCGTCCTGGGGGCCAAACAGTTGATTCTGGTGGGTGACCACTGCCAGCTAGGCCCTGTGGTGATGTGTAAGAAGGCAGCTAAAGCAGGTTTGTCACAGTCTCTGTTTGAGCGTCTTGTCGTTTTGGGGATCCGGCCAATTCGCCTGCAGGTTCAGTATCGCATGCACCCGGCCCTCAGCGCCTTCCCCTCCAACATCTTCTATGAGGGCTCTCTGCAGAATGGAGTCACTGCCGCGGACCGTGTGAAGAAAGGCTTTGACTTCCAGTGGCCACAGCCCGACAAGCCCATGTTCTTTTATGTCACCCAAGGCCAAGAGGAAATTGCCAGCTCTGGAACCTCCTATCTCAACAGGACTGAGGCAGCCAATGTGGAGAAAATAACCACAAGGTTGCTGAAGGCTGGAGCAAAACCCGATCAGATTGGAATCATTACGCCCTACGAGGGACAGAGGTCCTACCTGGTCCAGTACATGCAGTTCAGTGGCTCCCTCCATACCAAACTCTACCAGgAGGTGGAAATAGCCAGTGTGGATGCCTTTCAAGGCAGAGAGAAGGACTTCATCATCCTGTCCTGTGTGAGGGCCAATGAGCACCAGGGCATCGGCTTCCTCAATGATCCCAGACGTCTCAATGTGGCACTCACTAGGGCCAGGTATGGTGTGATTATTGTGGGAAACCCCAAGGCCCTGTCCAAGCAGCCTCTGTGGAACCACCTGTTGAATTACTACAAGGAGCAGAAGGTCCTGGTTGAAGGCCCCCTTAACAACCTAAGGGAGAGCCTCATGCAATTCAGCAAGCCCCGCAAGCTTGTCAACACCATCAACCCTggtGGTCGATTCATGAGCACAGCCATGTATGATGCCAGGGAGGCCCTCATTCCTGGATCTGTTTATGACCGCAGCAGCAACGGACGTTCGTCCAATATGTATTTCCAGACCCATGACCAGATTGGTATGATCGGAACAGGCTCCAATCCAATGACTTCCCTGAACATCCCCATCCCCTTCAACCTTGTGATGCCCCCCATACCTCCACCTGGGTACATGGGACAGGTCAATGGACCCTCAGCGGGCCGTGGTGGGGGTATGAAAGGCAAGGCAGGCAGCGGAGCAGGCGGCGGGATGCGAGGAGGGCGTCAAAGAAACCGCGGCAACTTGGGGAACCACAGCGGCGGACACGGAGGAGCAGACCGACACGGAGGCCACATGAGTGGCAGCCAGGCCAGCCAGGACCTGGGCTCCCAGCCCTTCTCCCAGGGGCCTCTGACGCAGGGCTACATGAACATGAGCCAGCCGTCTCAAATGAGCCAGCCTGGGCTCTCCCAGCCTGAACTCTCCCAGGACAGTTACCTAGGAGATGAGTTCAAGTCCCAGATTGATGTGGCTTTGTCCCAGGACTCCACCTACCAGGGGGAACGGGCCTACCAACACGGTGTGACTGGACTGTCCCAGTACTAGACTGTTGCTGGGAAGGAGCAAGGCCTGTGTGAAGCAAAGTTCAATGGTATTTTAATCTGGGTAATaacaaaaaagaacaaacatGGATACCCGTTTTCCACTGCTACAACTGAAGCACCACTGTGTGAAAGTAACAGGAGAGAGACCGTGAGAAACCAACCAATCACAAGAGTGAGAGCAACAATGGGTGTAGAGCTGGACAGGAAGAGAGCAAGGGACGAGCCTGGTGGAGGAGAGAAGGTGCTGCTGCTCACACGCGAGGACATGGCGAAAGAAGATAGCAGTCGTTGTCGAGGCGGGCGCAGTCGGAGAGGCGAGACCTTCGACGGGTCAAAGAGGGTGGAAGGTCCGAACGATTCTGGAAGGGGTGGGGGGACTGTGTCATCTTGTCCCTCGTGTGCCCCTGAACCCTCGGGGAACTCCAGGCGGAATGGTTGGGAATCTTGCTCCAAAAGCTgagaaagatggagaaaagGTGTCTCACACAAATGTCCTCCAAGCTAACTCAACAGGACATCTTCTGTgacttggagagagagagagagagagagagagagagagagagagagagagacacaaaaacaaagggGGACACAACTCTTGAAGCAGTTGATatggcaacttttttttttaactcaaagcTTGATTTGGGGCTCTGCATTTGATCACATCTAAGCATCCAGGAGAGAAAAGTTTGACAACACTGTTTGGCTAACCAAGTGAACTCAACAGTGCTTGTGGTGTTGTGCCTCAAAGAGTTCAAATGAAACGTGTGGATTACTTTGCCACAGATCACTCGCTTTTCTTTCTCAGCTTTGAGTCGGAAAGTTTTCTAAATACATGCTGTTTTCATTGAGGTATTCAGTGATGTAAGCTAGTGTAGTTGGCCCGTCTTTCAAAGGCAGGTCTTTCTAGAGGTGGTCTGCAAAGAACAAGTGGTGGAATTAGCTGTTAAAAATAGAAacctaaaagaaaaacatctttgTCTCCAGATCTGAGGAGGTGGGCTCCAGAGATCtgacaattttgtttttgtgtgtgaaaatgtatcttttagtaGTGCAAAAGAGTGAAAGTGAAAACCATAACCAGCTTATAACTGAATGAAGCGGCGTTCTTTTCTGCTGACCCTGATGCCACTAAAGCTAGCAGACGGGAATCGTCTTGAGTGTATATATAGCTAAATGCATCAAATAAGCCAAATCAAGAGGGCAGTTATTTCCAAAGACCCTTctccaaaagtaaaaaaaaaacaaaaaacaatgagATTATTTATGTACAATTAAAGCACCTGATGATGATCACACTAAAGTGAAGTAAGAAATCACTTCTATAAAATGAAATCATGAGCTTGAGTTTTCATGCCTATGGATAGCCTAACATGACCACTCCGTACAAAGGATGATGCAAGCTTCTGAGGCCCCAGCTTAGAGCAAATGTCTTGAACAGATCAAAGATTTCACCATGTTGACTGTGGTGAAAGATATTTTAGCATTTCGGAGAACCCATTGATAACAAATCGAAAGGTTACATGTTGTCGGTGCACTGTGAAATTTggcataacttttttttttttaaattaagacaCGAAGACCCAAGTGTAGTGTTTGTTGTCTTCCccttattgttgtttttgtcatttgttgtcCTAAAGTCTTTAACTTGtagaaaagtcaaaagtagtgtaacatGTAAAGGGCAAAACGGCTAGATTTAGTGGTTGAccgaaaaattttttttataaaatacaacaatttaaTAATAACATATGAGACACAAAATTGCTTAACTTAAATGaacatttatttga

Function

GO:

id name namespace
GO:0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay biological_process
GO:0009790 embryo development biological_process
GO:0005737 cytoplasm cellular_component
GO:0005524 ATP binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0008270 zinc ion binding molecular_function
GO:0004386 helicase activity molecular_function

KEGG:

id description
K14326 UPF1, RENT1; regulator of nonsense transcripts 1

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU162009 lncRNA upstream 56336 34645692 ~ 34665214 (+) False pde4ca
TU162002 lncRNA upstream 103338 34617774 ~ 34618212 (+) True G120295
TU161997 lncRNA upstream 113794 34603860 ~ 34607756 (+) False pik3r2
TU161998 lncRNA upstream 152785 34568185 ~ 34568765 (+) True G120291
XR_005640612.1 lncRNA upstream 229173 34486228 ~ 34492377 (+) False LOC120567793
XR_005640791.1 lncRNA downstream 25091 34768101 ~ 34771677 (+) True LOC120568809
XR_005640792.1 lncRNA downstream 49748 34792758 ~ 34797847 (+) True LOC120568810
TU162120 lncRNA downstream 153525 34896535 ~ 34897133 (+) True G120391
TU162122 lncRNA downstream 162136 34905146 ~ 34905390 (+) True G120393
TU162125 lncRNA downstream 210315 34953325 ~ 34954407 (+) True LOC120568917
XM_039815559.1 mRNA upstream 1680 34715076 ~ 34719870 (+) False pgpep1
XM_039815558.1 mRNA upstream 3492 34714976 ~ 34718058 (+) True pgpep1
XM_039815555.1 mRNA upstream 13577 34692627 ~ 34707973 (+) False LOC120568198
XM_039815556.1 mRNA upstream 13577 34692762 ~ 34707973 (+) True LOC120568198
XM_039815069.1 mRNA upstream 29930 34661153 ~ 34691620 (+) False pde4ca
XM_039816513.1 mRNA downstream 718 34743728 ~ 34766331 (+) True LOC120568807
XM_039816518.1 mRNA downstream 718 34743728 ~ 34766331 (+) False LOC120568807
XM_039816516.1 mRNA downstream 718 34743728 ~ 34766331 (+) False LOC120568807
XM_039816514.1 mRNA downstream 718 34743728 ~ 34766331 (+) False LOC120568807
XM_039816517.1 mRNA downstream 718 34743728 ~ 34766331 (+) False LOC120568807
TU161934 other upstream 263939 34453722 ~ 34457611 (+) True G120249
TU161901 other upstream 317549 34400801 ~ 34404001 (+) False rps28
TU161873 other upstream 403784 34317148 ~ 34317766 (+) True G120200
TU161769 other upstream 555704 34164103 ~ 34165846 (+) False mrpl34
TU161681 other upstream 764046 33955183 ~ 33957504 (+) True LOC120568585
unassigned_transcript_567 other downstream 29064 34772074 ~ 34772146 (+) True trnar-ccu_3
unassigned_transcript_568 other downstream 29140 34772150 ~ 34772221 (+) True trnam-cau_25
unassigned_transcript_569 other downstream 33068 34776078 ~ 34776149 (+) True trnam-cau_26
XR_005640811.1 other downstream 860378 35603388 ~ 35609359 (+) False LOC120568940
unassigned_transcript_570 other downstream 1484814 36227824 ~ 36227906 (+) True trnal-uaa_3

Expression Profile