RNA id: XM_039801897.1


Basic Information

Item Value
RNA id XM_039801897.1
length 4876
RNA type mRNA
GC content 0.40
exon number 2
gene id hoxc1a
representative True

Chromosome Information

Item Value
chromosome id NC_053116.1
NCBI id CM020913.1
chromosome length 44101041
location 20800099 ~ 20808534 (-)
genome version GENO_Pfluv_1.0_2020_eurasian_perch_Genome
species eurasian perch
(Perca fluviatilis)

Sequence

ATGACTTCCTATCAAGAGTTAACGGCCGAAGGGGAGAGTAGCCCTCTGTTCACGGGCTGCTGCCGAGCAAAAGAGGTCATAAACCGGGACCTGGACGGCAGGACTCATCCTGAACTCGGCAGTCGTGATGAGGAAGGGAAACTGGAGGTGGAAGTCGCCTCAGGATTTAATTCTCCGCATCCCCGGTACTTAACTCTCTCCAACAGTTTGGCTCTGTGTACCTCTTTGGACAGCCCTCCTCCACCGTGTGAGACTCTCGAGGGCTTCTCGACACCGGCCTGCCCCCACTTGTCCCGTGTCCCCTGGCGGTGCAGGGCGCAGGGGCAGGGCTCTCCAGGACGCGGATTCTGCGCCTCAAATAACAACGAAACGCTACGATCCGGCGTTGGGTCACTTACAGAGCAAATTCATATATACTCTCGAAATGGCCCTGAGATTCACGCCACCACGGGGAGTTCCGCTGGCTCGGACTGTAACGTAGCTTATATGGATGTAAGCAGAAAAACTTTTGAGTGGATGAGAGTGAAGAGGAGTCAGCACCGGCCGGCCAGGATGCACATGACCTGTGGGTTCAGTATTGTTGGCTCGGGCCTCGGTGCTGTAGAGGCTGGGAGCAGCAGCATCTGCACGGATGGCCATCCCACGGTGAACGGGACCCCAAGGACCAGCTTCAGCACCAAGCAGCTGACCGAGCTGGAGAAGGAGTTCCACTTCAACAAGTACCTGACGCGGGCCAGGCGGGTGGAGGTGGCCAGCGCCCTGCAGCTTAGCGAGACGCAGGTGAAAGTTTGGTTTCAGAACAGGCGCATGAAGCAGAAGAAATTACAGAGAGACGGAATGCTCTGCGACCCGATGCCCGCGGCGCTGCACTCACACGCCGACACTTTGGACACCTGCCCCTCTCCTTGACCGACATCGCCAAAACACCTGCATCTGAACTCCTGAACCGCAGGAGCTGCATCACGCGTTACACATGCAAGGGCGCCTGCCTGCAGATGTTTTGATTCCCGTTTGCATCGGTTTCAATTAGGCTTCACCTTTATTTGCTTACCACGATGGATGCTTATCGCAAGAAGCGCAATGGCAAGTTTCTTCATGCAAGAACGGGTCAAAACAATTTGTCATCCTCTCCCGGCTTCAGACTGGCGCTctgatttgaatattaaaattcAAGTCATTGCATCGCGCTCCATATCTATACACAGTGTAAACAAGGAAACTAAATTATATTAATTGTCCATAGAAACTTTGGTAgactatttgtttatttattttgtacaatTTATCCAGGAACTGACTTTACTTAAATAGTCATTCAATAGGACACGTGCCTCCTAgttttgtttaaaatagttatttgttatttattaaaagtCTACATTTGAAATGGTTTATTCTAGTGACAGAAAGAAAATACATTATTAGTAGCATAAATTTGACTAATTATTCCAACAGATTAACATACTGCTTTCTCAACCAATTCAAGATGCAGCATTGCGGggatttctttttatatttcttttaaaaagctgtttgTCTCTGACACATTTGAGGAAATATGCACCTGTTACAAACATCTTTAACATGTTAGCAGATAATTATCAGGCTAATTTAGCAGAGTTTTAATGCTGCTTtaatgttgtgtattttgtccggTTTTAAGGTGTTCATCCACGgattaaaatgtcataattgACTGATAGATTTATTGACCGCTCGCATTACGAGTATTGATCCGTGGTGATCCATCTATTTGAGGCACAAATCTAGGAGCATTTGCGTGCGTCTGTAACTGCATGTTAATGGAATGTGGAAACATCACGATCGGGAGTTGTTGCGTCTTTTATTACCTCTATATACATGCATCAGAAAATGACAATTTAGCTTGAACACTCATGCGGGAGAGCAGACAATAAAACGCTTTCTTGGCTGTTTTGCAGATCAACCAATAAATTGTTTGGTCCCAGCAGCTCGAGCTGCTAAATATTCCTTCCAgattcacatctcatctcataTCAAGTAAATGATTGTAAACTCGGCCCTTAAACACTGTTATGTTCCCGGTATGGCAATGCGTTTCTGTCATGATAATGTCTATTCTAATATCAAGATATGAGGCCATCGGCCACATATTCATTCTATGTAAGGGCATATTTTAGTTTAGCTTTAATTAGCGGTTATTGCACTGGATATGAAGGTTAGTAGATGCAAAGCGGAtgttaatgacaataaaggaaTTCAACTTAAAGCATCTGGGTGTCGCTTAGAAATAAACAGCGAGAATCAATCAGAAGAATTAATCTGGCTAAAGTGCGTTTTAAACCTTTAACAGGTGTCCTCATTGGAATTtggcttttaaataaaatagcctaataaaaaTCACTAATACAATTAGTATTAGACAGTTGCACCCGCAGGAGTGGACATGAAGTAGCCTAAATGTATGCAGTTACACCGAAGTTCACCTCTCACCTCTTGACCCCTCTTGCCTCGGGACAGCGATGACCCGGTCAGCGGCTCAGAGAATGATGCGTATTCATTTGGGGGGTGACAtcgaagtctctctctctctctctctctctctctctatttctctctctctctttctttctttctttctttctttctttctttttctcttttctcttttccccAACATCTCGGAACGCTTTTGTTCTGGTGGTGGATCCATGTCCACCCAATAATATTTCATCCAGCTAAATAGAGGGGCGACTAGGCCATATGATAATTGTTCATATTATAATTCCATCCTAGGCTACATAAAGCTCCACCTCCCCTACACCTAGAGCTAACCTAATTTTTGCCCTATCTCTTATTTTAATAAGCCAAAAAATATGCTCCTGGCTCACTTTATAAACTGGATGAAACTTTTCACCCAATATGTTTTGGGATATAAACTACAGACCTATTTTTAATAGCAAAGTTGAAAAATTAAAGTTACTTGAGCATGCTGAACACTTAATACGATTCCATGTCTGAGCTAGTATAAACAAAATTTAGAACAACTATTTATAACATGCAGGCTgcttatatatttcataaatatctGCTTGAATAATTTTTGAAGAATTTACACATTAAACACCtccaaacaatatttttttaataatgttcaTCTCATTAATATTAACTGAAAGCTAGAAAGGAATACAAGTTCAAACGTAAAGGTCTGCAGAGGAGCTTTTGACAGTGCAAACATTTGAAAGTTTTATTTGTAATTGATACAAATGATTTTACATGGAAGGTAGACTAAAAATGTGTTGAGCCCAATTTATTTGAAATTTGCAtttaaacaaaatacacacCATTAAGGTCGCCTTCTCTAAACAAAATAGCACAAAGTGGAATGTTTAACAAAACCTTCAAATGTGTCCGTCTTTTTTAATGCAAATAAGTGTGCACTTGTGAAGGTTATGAGGATGACGATGAGGTCAATAATGTTGAAACAATGTGATGATAAAACTTGTGAATGTAAAAATGGCACCTCATGTCCACTGCTCCTATACTGAGAAGTGTGTTAAGTTGACCTTATTAGAAACTCTTTTATCATCTTGTGCAAATTTGTTCCCTTGCCACAGGGCTTCAAGTTACAGGTTGTAATGTGCACAGAGGATGCTTGCAGCAAGTATGAactctttgacttttttttttaatccaaactTACTTCATCACAGTTTCTACTGTATAAAAGATTAACTTAGAATTGTGCACTAATTTAAAATAGTAGAGAAAATGTGTGGAGGAAAAAAACTTAATGTGAGTTATAGGGATGAGGTGAAGGTGAAAAGAAGAGTTGATTTGTTTTGGGTGAACTATCACTTTAATTTCATTCCGTGGCAGCTTCAGCATTTGCCTCTCAATTGATGAAAGGCGAACCGCATTGTTTGTTCAGACCTGACATTTAGTTCGAAAGCATTTGAGTGTGACTCTACTCTGATGAATTTGTGCTCTTCTGTAATTCCTTCCTGGAGATGTACGATTGGTTCACGAGACTGACAGCTGTGCTTCGTTTATACACAAGCTAACACACAGtaaatggaaagaaaataaaaccaaaataacTCAACTGGAAATGTATTACTGCCACAGGTTGTAACAGTGATGACATTAAACAAGTTGGGATTTCTTCCCCTTTATTTGTCTTTCCCCTTCCTGTACAGCAATAATTTCTCTATTGAAATTCATTCCAAAATCTATTTTATTTAACTAATTTATCTAAATCAATAAGAAACATGTATCATAATGAAGTATAATAGATTACTTGTGCATTACTAATGTAATGCAAATACCTACATTATTTGTAAAAGTTAAGTAAcctgttattattttttaataaaacactGTGATTGAGATATCAAActcatacatagttcatcatgaATGAGGCTATTGACCATCTTCTGTATTGCCTTCTATTGTAAGttacactgtaaacccagatttagttgtaattcAACTTTTAGTGGTACTccttattctttcatgttttgttaaaaaacatattcattactaaatcacgttaattgtttgtaataatcagcttaagtattaagtgcacagatcatattaagcagagataactaaggatgtttctgtatgggaggggTGGGGTCATTTGAACTGTTCTGTGCTGAAGCGAATATATATGTTCTGAAGGGTTTCTGTCCTGGTTAAAGTGTGTTTcaataatgttctgttaatgatttgggtgtgcatttatgttatctgggttttagttttgtatggctgatttagtgttcatgtttatctaAATTTATTGTTGTACCATGACCGAGACCTGGGTGGGGACTGATGGGGTCTGGGCAGTATTAAAAAGTCTCTCGGTACATACAAA

Function

GO:

id name namespace
GO:0003677 DNA binding molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU68915 lncRNA downstream 74198 20725627 ~ 20725901 (-) True G51577
TU68912 lncRNA downstream 77101 20722650 ~ 20722998 (-) True G51574
TU68904 lncRNA downstream 136522 20662353 ~ 20663577 (-) True LOC120558476
XR_005639129.1 lncRNA downstream 136523 20662428 ~ 20663576 (-) False LOC120558476
TU68877 lncRNA downstream 358292 20441496 ~ 20441807 (-) True G51544
TU68928 lncRNA upstream 53692 20862226 ~ 20952782 (-) True G51589
TU68930 lncRNA upstream 74440 20882974 ~ 20952782 (-) False G51589
TU68929 lncRNA upstream 112161 20920695 ~ 20952782 (-) False G51589
TU68967 lncRNA upstream 216599 21025133 ~ 21031699 (-) True G51614
TU68973 lncRNA upstream 228548 21037082 ~ 21041944 (-) True G51620
XM_039800290.1 mRNA downstream 45569 20751583 ~ 20754530 (-) True hnrnpa1b
XM_039800315.1 mRNA downstream 59140 20730106 ~ 20740959 (-) True copz1
XM_039800269.1 mRNA downstream 368368 20409537 ~ 20431731 (-) True LOC120558914
XM_039800238.1 mRNA downstream 471760 20325451 ~ 20328339 (-) True fkbpl
XM_039800262.1 mRNA downstream 478567 20317192 ~ 20321532 (-) False ccdc115
XM_039799366.1 mRNA upstream 8884 20817418 ~ 20820599 (-) True LOC120558390
XM_039799361.1 mRNA upstream 11637 20820171 ~ 20875281 (-) False LOC120558386
XM_039799359.1 mRNA upstream 11637 20820171 ~ 20875281 (-) True LOC120558386
XM_039799368.1 mRNA upstream 20193 20828727 ~ 20833997 (-) True hoxc4a
XM_039799375.1 mRNA upstream 31417 20839951 ~ 20842893 (-) True hoxc5a
unassigned_transcript_227 other downstream 479261 20320767 ~ 20320838 (-) True trnae-uuc_54
XR_005639385.1 other downstream 1093299 19706679 ~ 19706800 (-) True LOC120559930
XR_005639383.1 other downstream 1098648 19701330 ~ 19701451 (-) True LOC120559928
XR_005639384.1 other downstream 1100205 19699773 ~ 19699894 (-) True LOC120559929
TU68271 other downstream 1913346 18880365 ~ 18886753 (-) False LOC120558627
XR_005639106.1 other upstream 64174 20872708 ~ 20952518 (-) False LOC120558386
XR_005639105.1 other upstream 75404 20883938 ~ 20952518 (-) False LOC120558386
XR_005639108.1 other upstream 75404 20883938 ~ 20952518 (-) False LOC120558386
XR_005639104.1 other upstream 75404 20883938 ~ 20952518 (-) False LOC120558386
XR_005639110.1 other upstream 75404 20883938 ~ 20952009 (-) False LOC120558386

Expression Profile