RNA id: XM_026933786.2


Basic Information

Item Value
RNA id XM_026933786.2
length 3537
RNA type mRNA
GC content 0.44
exon number 11
gene id pax2a
representative False

Chromosome Information

Item Value
chromosome id NC_047597.1
NCBI id CM018543.1
chromosome length 33776708
location 15590118 ~ 15625846 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

GTGGACTGCAGcttttagaaacacacacacaccgggaaGAGGGCTTTCATTCTCAGCCCAAAGCTTCTAACAGGCACATCCCATTCTTACAGAGAGGGGGACCGCAAGAGACACTCGCAGTGTCCATGTTTTTCCGTGGCATCCCCGCACACAGCCTGCGTGACTCGTAAGCCCAGAAACGCGTTGCTGATATATcgaagggaatttttttttttttacactgcacGTTCAAGAGCGGACACTTTGGCAGCGcgtctgaaaaaaaagaaagaaagaaagaaaaaaaaaaaaaaaacgttcctCTAAAATATGTGGCCAACAAGCATCCACTGAACGAGCAGTTCCGCTCAAATTGCTGCGAAAAGATCTTTTTGTTCGCTTTTTAAGACAAGTGACGGACATGATCTGCAATCCAAACTCGTTTTACCCCTGAAGGAACTGAAGCGAGAATAacttgaagaagaagaagaagaagaagcagaagcagaagttCTCCCGCGAGCCGCCGGCTCTGAAGCTCGACACGGACAGCAGCAGTTTTCTAACCCGCATTGAAAGCTGCATAATCGAGGCGAGACGGCGACCTCAGTCGATTATCTCTCCTTCCTTTGCTATCCCATGGATATTCACTGCAAAGCAGACCCATTCACGGCGATGCACCtcTCCCACATAGGGCATGGGGGTGTGAACCAGCTCGGAGGGGTGTTTGTGAACGGCAGACCCCTACCTGACGTGGTTCGGCAGAGGATCGTGGAGCTGGCACACCAAGGGGTCAGGCCGTGTGACATCTCCAGACAGCTCCGGGTCAGCCATGGCTGTGTCAGCAAAATACTCGGCAGATACTACGAAACTGGCAGTATTAAACCTGGAGTTATTGGCGGCTCCAAACCCAAAGTGGCCACTCCAAAAGTTGTGGATAAAATTGCAGAATATAAGCGGCAGAACCCCACCATGTTCGCCTGGGAGATCAGAGACCGACTTCTCGCCGAAGGTGTGTGTGACAACGACACGGTTCCAAGCGTATCCTCCATCAACAGGATAATACGGACCAAAGTTCAGCAGCCCTTCCATCCATCTCCAGACGGGACAGGAACTACCCTTACCACAGCAGGACACACTATAGTGCCTAGCACAGCTTCCCCACCTGTATCAAGTGCTTCGAATGACCCGGTGGGCTCCTACTCCATCAACGGCATCCTCGGAATCCCTCGCTCCAACGGCGAAAAGAGAAAGCGTGATGATGTTCTCTGGAGTGGCAACCACTTGGATGGGAGGAAAATAGGATATTATGGCTCAGATGGCTCTGGCCCAAACAGTGATTCTCAGGGTAGTGTGGAGAGTTTACGAAAGCACCTGAGGGCTGATGCCTTCACTCAGCAGCAGCTGGAGGCTCTGGACCGGGTGTTTGAGCGGCCATCATACCCCGACGTCTTCCCAACATCAGAGCACATCAAGCCAGAGcagGCTAACGAATACTCACTACCAGCACTGAACCCAGGACTGGACGAGGTCAAGCCCAGCCTATCCACCAGCGCCAGCTCCGAACTGGGCTCCAGCGTTTCCCAGAGCTACCCAGTAGTGACAGGTCGAGACATGGCCAGTACAACTCTCCCAGGTTACCCCCCTCACGTCCCCCCCACTGGGCAAGGCAGCTACCCCACCTCAACACTTGCTGGAATGGTTCCTGGAAGCGATTTTTCAGGAAACCCCTACTCCCATCCACAATACACAACCTACAATGAAGCTTGGAGGTTCAGCAACCCAGCACTATTAAGTTCCCCTTATTATTATAGTGCCGCATCCCGGGGCTCGGCCCCTCCCACTGCTGCCACTGCCTATGACCGCCACTagttaccatggcaaccacGTCACTCTGCAGCAACACAACCATGACCCACGTATCGCACCAGTGTGAACAGTGTTACGGTCCAACGTGGCCATTCAGCGTGGCTCCACCATCTTCAGTTTTGCGGGGTCAGACTGTGAGATTAGGAAGGTCAAGCAGCCGTGAATTTTCCCTCCTGCATTTCTTCAACGCCCCCTACTTCAATCATCGATATCTGAGCCCCTGTTTTTCAACTCGCTGAACAATGACTATAAAATTTCCGTAAAGACTCTGAAAGATTATACAAaatctatatatattataagatataaaacaagacaaaccgtgtgaaaaatacaaagttaacacgtgatttttttttgtttgtttgtttctttttttcatcagtCATTGCATTCCTTTACATACTGTACGTAGTACCATCAACCAAGGATTAAAAAAGGCAATTTGGGATTGTCCTTTGCCAGTGTGTAAACCTCTCATGGACAGATCAGTTATGCAAGagatgcagttataggaaagaAGAGCACTGCAGTGGAAAGCATCGGCTCAAACCCTCTATCGTAATAACCAGTTCAATAATCAGACGTTGTGATAATATCAAAAGGCTTACATCATGTTCTGTGAGACACAATCATTTGTAAAAGTCTGAATAGTAAGAATAAAAAGGTAATGAATGGCCTGAGGATAAATTAATTTCTTGAGTTACAGTTAGAGTTGATTTTGATTTTACAATTTCTCCCTTTTTGTTACATATACAAGATTATGACAGGTTTCTGTTCAGGTGCTACATCATGACCAACATCATGCTTTGCTCCTTTTTGCactatttaattacaaaatttcAATGAGGTCTGTGAGCAAGCAACGTTTGTCCAATGATATGtataaacatgtaaaactcaTTCTATATTGGacaaaacagcagaaaatatTCTGACACCTTTAACTATTGCTTCCACTCATATAAactgtttgttgttttcttttttgttcatgttttatgaatgtttaaaaaaaacagtggcgTGCTCTTATGACATATTACTGGGCCATTATCATCTGTACTAAACAGAGTCttactgttaaattatttttatattttttacataaatctACTGCTCATGTTAAACAGAAGATTGATCTCTACTCTCATTTCAACATAAGTGACACTCCTAGTACTGCCTTACAACTTTTTAAAGGTTTGGGTGAAAACTGGCTCCAGTCCTGAGAGGTAGATATGCAAGTAACACAGCTTTTGTGTTTTAGATCAATGTTTCTAGATGGGACATTTAAATCCGTGAAAAACATCCATTCCATCATTTCCAGAAAATGTAAAGTGAATGTACTTTTACCACATTTGCCAAAGACTTagtttgatatttaatattttatttgcagtaTCTGTATGCATTAATAAAGCAGTATTATGTTTTAATAGTAGTCAACACTGATTCTATGTGGTAAtgttaaacaaaacacaaagctcCATCAAATGCACatcacagtgtacacacacaaggTGTATTCCGTTAGTCAATGTTATGTCATTTGCAACAAATTGCTGCTTTGTAGAATTTGTGTATAATGTGAAGACAATTCTTCAATGTATATAAGATCATCTACATCTGACCATTGCAGTATCGTAGTAATTTACTGATTTCATTTGTAGATATgcaaattgaaagaaa

Function

GO:

id name namespace
GO:0001708 cell fate specification biological_process
GO:0035775 pronephric glomerulus morphogenesis biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060113 inner ear receptor cell differentiation biological_process
GO:0072114 pronephros morphogenesis biological_process
GO:0021588 cerebellum formation biological_process
GO:0009880 embryonic pattern specification biological_process
GO:0043049 otic placode formation biological_process
GO:0048596 embryonic camera-type eye morphogenesis biological_process
GO:0030878 thyroid gland development biological_process
GO:0007422 peripheral nervous system development biological_process
GO:0030901 midbrain development biological_process
GO:0030917 midbrain-hindbrain boundary development biological_process
GO:0005634 nucleus cellular_component
GO:0003677 DNA binding molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU55393 lncRNA upstream 122792 15473201 ~ 15473870 (+) True G46849
TU55373 lncRNA upstream 177020 15419029 ~ 15419642 (+) True G46833
TU55286 lncRNA upstream 512352 15079813 ~ 15084310 (+) True G46765
TU55287 lncRNA upstream 512352 15081653 ~ 15084310 (+) False G46765
TU55220 lncRNA upstream 581481 15014123 ~ 15015181 (+) True G46713
TU55615 lncRNA downstream 85291 15711137 ~ 15715524 (+) True G47043
TU55651 lncRNA downstream 267735 15893581 ~ 15896079 (+) True G47071
TU55664 lncRNA downstream 407458 16033304 ~ 16035339 (+) True G47084
TU55821 lncRNA downstream 477990 16103836 ~ 16104050 (+) True G47224
TU55827 lncRNA downstream 498820 16124666 ~ 16134002 (+) True cxcl12a
XM_026942759.2 mRNA upstream 109139 15480527 ~ 15487523 (+) True chst3a
XM_026943684.2 mRNA upstream 145782 15447423 ~ 15450880 (+) True lrit1a
XM_026942885.2 mRNA upstream 183272 15388496 ~ 15413390 (+) True ogdhl
XM_026940301.2 mRNA upstream 210268 15355817 ~ 15386394 (+) True parga
XM_034302788.1 mRNA upstream 244414 15325232 ~ 15352248 (+) False myofl
XM_026933724.2 mRNA downstream 47589 15673435 ~ 15677449 (+) True cuedc2
XM_026943305.2 mRNA downstream 97035 15722881 ~ 15730701 (+) True dnajb12a
XM_026943827.2 mRNA downstream 120607 15746453 ~ 15773703 (+) True spock2
XM_026943836.2 mRNA downstream 120607 15746453 ~ 15773703 (+) False spock2
XM_026940901.2 mRNA downstream 167560 15793406 ~ 15797191 (+) True eif4ebp2
XR_004577898.1 other upstream 1229216 14361367 ~ 14367446 (+) False cgas
XR_003404567.2 other upstream 1313494 14213402 ~ 14283168 (+) False slc24a3
TU54033 other upstream 2095616 13498092 ~ 13501046 (+) False pcbd1
TU53738 other upstream 2563414 13032279 ~ 13033248 (+) False si:ch211-223p8.8
XR_003404144.2 other upstream 2596700 12982406 ~ 12999962 (+) False col17a1b
TU55629 other downstream 167582 15793428 ~ 15797204 (+) False eif4ebp2
XR_003404341.2 other downstream 444868 16070714 ~ 16073067 (+) True cxcl18a.1
TU55689 other downstream 444913 16070759 ~ 16071920 (+) False cxcl18a.1
TU55884 other downstream 608689 16234535 ~ 16236648 (+) False lrrc18a
XR_003403773.2 other downstream 3715504 19341350 ~ 19356098 (+) True sfxn5a

Expression Profile