RNA id: XM_034306585.1


Basic Information

Item Value
RNA id XM_034306585.1
length 3111
RNA type mRNA
GC content 0.49
exon number 9
gene id nr6a1a
representative True

Chromosome Information

Item Value
chromosome id NC_047602.1
NCBI id CM018548.1
chromosome length 30442583
location 27405450 ~ 27490461 (+)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

CCCCACAACGTCATTGGCCCTCTGGCCATGCCGTGACCCCTGGGGCCTGAACTCcgtggtcatgtgaccaagCCGAAAGTGACCAGCAGGCTCGACTGGGAGGAGGAGGATCAGAGCCAGAAGGagctgagaggagaggagaggacagcaggagagagaaaggcaagaagaaggacagagagggagagagagagagagagagagcgagagagagagagcgtcaTGAGGCCTAAGCCCTACCCGACGAGGATACACTTATGACTGAATGGCAGGAGAGACATGAGATGGATTCATGGGAAGatGACCAGGCTGAGCAGCGCTCCTGTCTCATCTGCGGAGACCGCGCCACCGGACTGCACTATGGCATTATTTCCTGCGAGGGCTGCAAGGGCTTCTTCAAGCGCAGCATCTGCAACAAGCGCGTGTACCGCTGCAGCCGTGACAAGAACTGCGAGATGTCACGCAAGCAGCGCAACCGCTGCCAGTACTGCCGCCTGCTCAAGTGTCTACAGATGGGCATGAACAGGAAAGCGATCAGAGAGGATGGCATGCCAGGCGGAAGGAACAAAAGCATCGGGCCTGTTCAgatcTCGGACGAGGAGATAGAGCGGATCATGTCTGGTCAGGAATTTAAGGATGAGGCCAACATGGCAGAGCACACCTGGGGCAACAATGGCGACAGCGATCACAGTTCCCCTGGCAACGGCGTCTCCGATGGCAACCAACCTTCTCCCGCATCCACACTCTCCTCCAATCGCTCGGTGGAGCTGAATGGCTACACGGCCGCTCTCAGGGAGCAGTACATCGGCAGCGCCGTTGCCCAGCACTACCAGTTCCTGCCTCACCTGTTCAGCTACGCAGCGCAGCCCCGCAGTCTGTACCCGCAGAGTCATACCCTCATCAGCCAGCTGGTGGCAGCAGAGGAACTGGCACCACTGGGCACTCCCATGCTCATCGAGGACGGGTACCGGGTGACCCAGGTGGAGCTCTTTGCCCTGCTGTGCCGCCTGGCCGATGAGCTGCTCTTCCGTCAGATCTCGTGGATTAAGAAGCTGCCGTTCTTCTGCGAGCTCTCCATCGAGGACTACACACGCCTGCTGAGCGCCACGTGGCAGGAGCTCATCCTGCTCGCCTGCCTGACCGTCTACAGCGCCCAGATCCTAGGAGACCTCGCCAACGTCACCGACAAGTACACACCGTCCGATCACGAGCTTCAGGGgtTTAGCGAGGATGGCATGGAGGTGATGGAGAAGCTGATCTATCTGTTCCGTAAGTTCCACCAGCTGAAGGTCAGCAATGAAGAGTACGCCTGCATGAAGGCCATCAACTTCCTGAACCAAGatatccGGGGTTTGACTAATGTAGCACAGTTGGAGCAGCTGAATAAGCGTTACTGGTACGTGTGTCAGGATTACACTGAGTACAAGTACCCTCACCAACCCAAACGCTTCCCGGAGATAATGATGTGTCTTCCTGAAATACGCTGCATCGCAGGGAAGTTGGTAAACGTTCCGTTGGAGCAGCTCCCCCTGCTGTTCAAGGCGGTCCTGCACTCCTGTAAGTCCAGCCTGAACACCTACAGGTCAAACTCCTCCCCCAGTGTGACGAAGGGCTCCGCCCCTGCCAACTAAAAGACCCGCCTCTCGTCTCCCAACGCAGCACATGGAGACAGGGAGTTTTGGGGTCATGGAGGTGTCGCTCAGATAGTTTCACCTccgtttcttaaaaaaaaaaaaaaaaaaaagaaaagaaagaaatgatgaaTGTGACTAGCAGCTATTTTAtacgtttaatttttttcccctctctctatTTATTACCAGACAGAGCTGAATGTATACTGATGTACACTGCACACAATCGCTGCTGCTCGTACGCAAAATGCACAAACTCCGCAGCAGAGTTTACGCTCGCTCGTCCGACTGCAGAATGTGTTCCCACTGCTAGGGTTAGGAGTTTTGAAATAGTTCACTTTTTGTTGCTCATAGAGACagatatacaaatatatatatatatatacctcaGGTAGAACCTTgatgagctctctctctctctctctctctctctctctctctctctctcgctcactttCTTTCTAACATCCGTCACACGCTACACACTCACAGTGTCAAAAGTCATCAgccaaaaatgaatttatttcactttttactTCCTCAAGTAAGGAAAGATTATAGCCTCCAAACCTAAatcataacatacacacacacacacatacacatacacacacatcacaaaaaaGGTTTATACCTTAACAGGTGCAGTCTGATGTCTGAAGCCAAACTTTTCACATCATCCGAGTCTGAAGAGGAAGAATGCGATTCGGCAAATCCGTTTTTCCCACAACAGCATATCTGATGCTAACACGGTGGCTATAGCTTTCCATTAGTCGTTAGCTAAATTAGCCTTTGTGTAGCTCCAAGGAATTTGGGAAACATGAGTGGAAAGTGGTGAGGAGAGGAGATAAATGTTCAATCACAGCCTGGGGGAAAGATTTGTACCTCACAGCTATATACATGTCTGTTGTTTTTGAGTTAGTTCGCTATTCTTCTCTCTGTAAGGTTGGCAGGGAGCGAGCAAACTGTTCAGCTGAGTGAATCTAAATAAAGAGGACCGCTTAGAGAAAGTGCACCAGCTTGTACCAACAGCGTTTACGTGTTACTCTGTCGTTTCACGTGTCCTCAACTGGCCCTGCTCTCCTTTTTTTCACACTGGacagattatttaaaaacagggTAAAAACAGGCTCTTTTTTTAGACGTCACTCAAGCTCAGATATCACAATGATGTAGGTTTCTAGTTGTAGTAAGGTTGTAGTGTGTAGtaggtggttgttgttgtttttgttttttttttaaatactttttattttctccaggAAAGAAAAGGGGTGTTGTTTTTTCGAAGGGCGTTTGTTCGATGATGTTAAATATCAAACTCCGAAGACCTGATGGTTAGCGGGAGCGGCGTCCTTGGGAACGTCGAGATGTTTTATTGCTAAGCCAAACAGTTGAAACATTCCAAAAATCGtcgagaggaaaaaaaaaaatcagaaaaagtcgaataatgtttacatatttttgCAGCAGACAA

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0016477 cell migration biological_process
GO:0043401 steroid hormone mediated signaling pathway biological_process
GO:0022008 neurogenesis biological_process
GO:0030917 midbrain-hindbrain boundary development biological_process
GO:0005634 nucleus cellular_component
GO:0005737 cytoplasm cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0042803 protein homodimerization activity molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0003707 steroid hormone receptor activity molecular_function
GO:0008270 zinc ion binding molecular_function

KEGG:

id description
K08561 NR6A1, GCNF; germ cell nuclear factor

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU165078 lncRNA upstream 123768 27338993 ~ 27341506 (+) True G139756
TU165069 lncRNA upstream 169957 27288476 ~ 27295317 (+) False adam9
TU165045 lncRNA upstream 203533 27183021 ~ 27261741 (+) False fam160b2
TU164991 lncRNA upstream 356396 27106929 ~ 27108878 (+) True G139686
TU165143 lncRNA downstream 72581 27560390 ~ 27569085 (+) True G139807
XR_003404686.2 lncRNA downstream 116108 27603917 ~ 27610560 (+) True LOC113546137
TU165554 lncRNA downstream 123138 27610947 ~ 27611335 (+) True G140170
TU165666 lncRNA downstream 284635 27772444 ~ 27773644 (+) True G140236
TU165668 lncRNA downstream 286928 27774737 ~ 27851332 (+) True G140237
XM_026945720.2 mRNA upstream 95227 27363523 ~ 27370047 (+) True tti2
XM_034306399.1 mRNA upstream 104412 27347381 ~ 27360862 (+) False LOC113546107
XM_034306398.1 mRNA upstream 104412 27347388 ~ 27360862 (+) True LOC113546107
XM_026945831.2 mRNA upstream 104412 27347389 ~ 27360862 (+) False LOC113546107
XM_034306699.1 mRNA upstream 127106 27333371 ~ 27338168 (+) True ppiaa
XM_026945915.2 mRNA downstream 22894 27510703 ~ 27530908 (+) True nr5a1a
XM_034306400.1 mRNA downstream 93999 27581808 ~ 27588404 (+) True fgf17
XM_034306401.1 mRNA downstream 93999 27581808 ~ 27588404 (+) False fgf17
XM_034306402.1 mRNA downstream 93999 27581808 ~ 27588404 (+) False fgf17
XM_026945801.2 mRNA downstream 110605 27598414 ~ 27601456 (+) True tubb2b
TU165116 other upstream 35797 27428727 ~ 27429477 (+) True G139781
XR_003404685.2 other upstream 735443 26626053 ~ 26729831 (+) False rimbp2
TU164841 other upstream 898511 26563235 ~ 26566763 (+) False LOC117597788
trnaa-agc_2 other upstream 987815 26477387 ~ 26477459 (+) True trnaa-agc_2
trnaa-agc_1 other upstream 988397 26476805 ~ 26476877 (+) True trnaa-agc_1
XR_004578633.1 other downstream 531662 28019471 ~ 28027450 (+) False arpc5la
trnag-ccc_1 other downstream 2000164 29487973 ~ 29488043 (+) True trnag-ccc_1
trnar-ucg_2 other downstream 2000740 29488549 ~ 29488621 (+) True trnar-ucg_2
trnar-ucg_3 other downstream 2001533 29489342 ~ 29489414 (+) True trnar-ucg_3
trnag-ccc_2 other downstream 2001711 29489520 ~ 29489590 (+) True trnag-ccc_2

Expression Profile