RNA id: XM_034308239.1


Basic Information

Item Value
RNA id XM_034308239.1
length 2314
RNA type mRNA
GC content 0.48
exon number 3
gene id nkx2.4a
representative False

Chromosome Information

Item Value
chromosome id NC_047604.1
NCBI id CM018550.1
chromosome length 29376037
location 14697708 ~ 14702272 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

cataGGCAAGGTCATACAGAGGAATCCATGAGCCATCAAGAAACCTGTGCTTGAATACAAAACACTTTATTTCCTACAGCCGAGATGTCAATGACTATTGTTTGCTGGTGCGGGCCATCGCTCCGCCCCTCGTGTTTGTCGTAAACCTGGCGCCTGGCTACAATAAACCCAAGATGAGAGTGGCCAGGGCTCGCCTCCTCCTCGAAGGCGATCAATCGGATCTCAGGCAACTACTGCGAGCGCTCTCTTACGTCGACGCGCGCGAGAACGACGCGGCCGAGCGGCTCCACCACGCGCATCCCCGCCTCGCTTTTCTGAACCATGTCGCTGAGCCCAAAGCACACGACACCTTTCTCAGTGACAGACATTCTCAGCCCCATAGAAGAGACCTACAAGAAGTTTAGTGGCATGGAGGGCTCTGGGAACCTGGCGTCTCCGTTGGGAGCCTACCGGCAACCTCAGGTGTCCCAGACGGGCATGCAGCAACACTCGATGGGCCACAACGCCACGGTGGCCAGTACCTACCACATGCCCCACACCGTCTCCCAGTTCTCCCACAGCGCTATGAGCGGCTACTGCAACGGAAGCATTGCCAACATGGGCGATCTGCCCTCTTACCAAGAAACTATGAGGAGCAGTGCGGCGGCAACGGGGTGGTACGGCGCCAACCCCGACCCAAGATATTCAACAAGTATGAACATGAGCGGAATGGGAACGCTGAGCGGCATGGCGGACGCTTCCAAAGCCATGACCCCGCTGCACGCGGCGCCCAGGCGGAAGCGACGTGTCCTCTTCTCTCAAGCCCAAGTCTACGAGCTCGAGCGAAGGTTTAAGCAGCAGAAGTACCTATCAGCACCCGAACGGGAGCACCTGGCCAGTATGATCCACCTGACCCCCACTCAAGTGAAGATTTGGTTTCAGAACCACCGCTACAAGATGAAGCGGCAGGCCAAGGACAAGGCGGcgcagcagctgcagcaggagaGCAACCTgtgccagcagcagcagtcgCCCAGGCGGGTGGCTGTACCCGTGCTGGTCAAGGATGGCAAGCCGTGCCAGAACGGCTCCAACACTCCGACACCCAGCCAACAGCaaatgcagcagcagcaacaacatcaGCAACAGCAAAACAGCTCTGGGGTCGTGCTTCCTGCCACGAGTAACTCTATAAATCCACACCAGAGTCAGCAGGTGGGAGCCCTGGTACAGGCCCAAGACCTAGAGGAAATGTCACCCAGTCCTCCATCCCTCCACTCCTCACTAAACACCATGGGACAGATAGACACGTCTGTAGATTACACTAGCAACATGGTCACATCAAACCTGCTTTATGGCAGGACGTGGTAGGACTGATTCAtcattttcaactttttttttttatatacaaactCTAGCTCTGAAGTGAAAACGAGGCCAAAAGTAGACATCGGGTGTGAGAATGTGGAGGGTGTACGGATAAAACAAGGCTTTGGGGTCAAGCCACCTTTTCTTTTATCCAAGGcatgatttttttctacattaaacACTTCCACCAGTGAAGGACAAGATGTCATTTCTAGCcttattctgtgtgttttggacTCCCCTTTATTATGCTAGTAGAAGGGTACCCGTTGTTGAACAAGGTCGCCGCTCTCAGCAGTGCTATACAAGCAGAAAACGGGATGCTAGGGCTTCAGGTACGAACTTTTGATCCACAGAAGATCCCCGAGTGACCTGATCTTACAGCCAAGCTCCCGTGCTGAACACCTGAATTTATTCTGATATGAATATTGTAAGCTAATGTATCCTTTAGATTAATGAAAAGTAGGGACTGTATATTTGGCTAACACTTCATTTTCTGTTTACctgtaatataaatgataatttttttggttgtttattttatttccttttttgtaaGTTAAGACAAACACATACACTATGGCTGCTGTATATGTTTCAAACCAATTGAACGTTGACAATAAATCGATTGAAGTACCAGTCATTCTCCGGGAATTAATTTGGAGTGAGTTTGCATTAGGCCCGTGTTAACGCAAAGTGAGCTCGAGAGATGGAAAAGTGAACTGAagcaaatcattaaaatgaatatcatATGTTATGAGCTAGGCTGCAATATACTTTCtaagcatttacatttttaaacacgactaaacattatataaatgtacatatcGTTTTTTACAAAGCAGTTGCGAATTAAGCTGTTTTCAGAAATcagattaaaatgattacaaCTCAGCtgtaaaaaatacaatttaagaacggttatttatacatttatacgtCATGCaatttcatttttccttct

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function

KEGG: NA

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU196048 lncRNA downstream 49412 14647199 ~ 14648296 (-) True G165581
TU195921 lncRNA downstream 285041 14408793 ~ 14412667 (-) True G165494
TU195859 lncRNA downstream 456705 14192997 ~ 14241003 (-) True G165452
TU195855 lncRNA downstream 504137 14190691 ~ 14193571 (-) False exd2
TU195858 lncRNA downstream 507223 14189892 ~ 14190485 (-) False G165451
TU196201 lncRNA upstream 157777 14860049 ~ 14860606 (-) True G165721
XR_003403867.2 lncRNA upstream 159882 14862154 ~ 14874192 (-) True LOC113538627
TU196200 lncRNA upstream 159914 14862186 ~ 14874133 (-) False LOC113538627
TU196384 lncRNA upstream 239429 14941701 ~ 14942043 (-) True G165856
TU196395 lncRNA upstream 249469 14951741 ~ 14954029 (-) False G165864
XM_026934151.2 mRNA downstream 128610 14469694 ~ 14569098 (-) True ralgapa2
XM_026934153.2 mRNA downstream 128610 14472127 ~ 14569098 (-) False ralgapa2
XM_026934152.2 mRNA downstream 128610 14472127 ~ 14569098 (-) False ralgapa2
XM_034308307.1 mRNA downstream 128610 14472164 ~ 14569098 (-) False ralgapa2
XM_026933665.2 mRNA downstream 379594 14308595 ~ 14318114 (-) True LOC113538539
XM_026933666.2 mRNA upstream 24861 14727133 ~ 14772881 (-) False nkx2.2a
XM_034307754.1 mRNA upstream 24861 14727133 ~ 14772881 (-) True nkx2.2a
XM_026933667.2 mRNA upstream 24861 14727133 ~ 14750389 (-) False nkx2.2a
XM_026933668.2 mRNA upstream 24861 14727133 ~ 14734008 (-) False nkx2.2a
XM_026934223.2 mRNA upstream 173451 14875723 ~ 14878332 (-) True foxa2
TU195857 other downstream 507223 14188238 ~ 14190485 (-) True G165451
trnal-uaa_1 other downstream 842016 13855610 ~ 13855692 (-) False trnal-uaa_1
TU194859 other downstream 1792125 12903788 ~ 12905583 (-) False timm9
XR_003403883.2 other downstream 1884044 12791829 ~ 12813664 (-) False fzd3b
trnal-cag_11 other downstream 2477036 12220590 ~ 12220672 (-) False trnal-cag_11
TU196126 other upstream 24932 14727204 ~ 14729021 (-) False nkx2.2a
TU196128 other upstream 24932 14727204 ~ 14733850 (-) False nkx2.2a
XR_004578922.1 other upstream 407322 15109594 ~ 15117364 (-) False capn3a
TU196803 other upstream 602351 15304623 ~ 15322004 (-) False pgfb
XR_003403862.2 other upstream 932814 15635086 ~ 15663495 (-) False ktn1

Expression Profile