RNA id: XM_036965290.1


Basic Information

Item Value
RNA id XM_036965290.1
length 2898
RNA type mRNA
GC content 0.48
exon number 3
gene id irx2a
representative True

Chromosome Information

Item Value
chromosome id NC_048567.1
NCBI id CM023221.2
chromosome length 85311031
location 510967 ~ 515209 (-)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome
species rainbow trout
(Oncorhynchus mykiss)

Sequence

ctcggTGCTATAGCTGAACCCCATCTTTCTAATACTCCACTTGACGCAATTATCAACTGCAAGTTGACAAGGAAGAAAAACCTGGAGAATAGTAAATATTACTGTCATAAAAAATTATGTTCAGTCactgaatatttttttatttcaattgacaagAAGTTTGCGCAATAAATACTGCCTGGATGTTTGAGCATGGGAACGTTATTGTCATTAAAACAAGTGAATTTCCACAATTTGCGCAGCTGCAGCAGACTAAAGAACATTGTGCCAGTGAATGTCTTccccctccactgtcctctccgtGTTGTTCCAGCCAGGGCTCCATTTCAGAGGGCGGAGATGGAATATTCAGATCAGCTGAGTGACAGCTCGTGTTTTCCACCGTTCTCAGAACTCCACTGGCTCCTTCGTCCAACTCCTCACTTCAGAGTTGAGGCTACTAAAAACATCGGACGCTAGGGGATCGAGACGTCGCCTGCCTCTATGTGCAGGGCACTTTACTGATCTTTTGGGGGTCgctttttaattatttttatttgaattgTCTGAAGATCTGTTTAGTGAGCTCATTATTCTACAGAAGTCCATTTTCCGTGCTTTCCTCTTTGGAATCAGCAGCAACAGACTCTCAGTGAGGCATGTCTTACCCCCAGGGTTACCTCTACCAGCCGCCGGGCTCCCTGGCTCTCTACTCCTGCCCGGCTTACGGGGCTTCAGCCCTGGCTGCCCCGAGGAGCGACGAGCTGGCCAGGTCGTCCAGTGGATCAGCCTTTAGTCCTTACCCCGGATCAGCTGCTGCCTTCACGGCTTCAGCCAGCGGCTTCTCCAGCCCAATGCCATACTCCACAGACCCTGCCACGGGATTTCCTTCCTACATGAGCTCTCCTTACGACGCGCAGGGCATGGCCGGGGCGCTGAGCTACCACCCCTACGGTAGCCCGGGATACCCCTACCAGCTCAACGACCCGGCCTACCGCAAGAACGCGACCCGAGACGCCACCGCCACGCTGAAGGCCTGGCTACAGGAGCACAGGAAGAACCCCTACCCCACCAAGGGAGAGAAGATCATGTTGGCCATCATTACTAAGATGACCCTGACGCAGGTGTCCACCTGGTTCGCCAACGCCAGGAGGAGGTTGAAGAAAGAGAACAAGATGACGTGGGCTCCCCGGAATAAGAGTGAGGATGAGGACgatggagacggagagaggaATGATGACCGCTTGGAGAAAAATCTTGACAACAGCGAGACGTCCGCGGAGGATGAAGgtATCAGTTTGCAGGTTGATACCCTTACAGACCATTCTTGTTCAGCGGAGTCTGATGGGGATAAGGTGAGCTGTCGAATCGGGGACCAGGTCTGTGAGTCTGGGTCAGATACTAAGGACAAATGTGAGGATGATTATGATGATCACGAACTGGAGAATGATGAACGACACCGAAGCCTGTCACCTAAACCTGTGACATCATCACCACTAACAGGGCTTGAGGCCTCGGTCTTAAACAATCACCACcgggaaaacaacaacaaatcatGTCTTGACAGCCGAATCTCAGGTCGTCACAATCAAGCCGTCAAACCCAAACTGTGGTCGTTAGCGGAGATCGCTACTTCAGACccgaagcagcagcagcatcacccGGGGCAGACTTGTCCATCCCTCGGTCTTCtaacctccacctcctccacccctTCCCCGGCCGTCCCTGGCGCTGTGTACTCCGCCTCTTCCATCCTAGGACGACCCATCTACTACACGTCTCCGTTTTACAGTAATTACACAAACTATGGCAACTTCAGCCCGCTGCAGGGTCAAGGGATTCTGCAATATAACTCTGCTAACGACGGACTCACACAGACTGCTGCTGAGGTCAGCACCATGCATAAACACACCACTGACTCTCTGCTTAAAACGAACGCTAACCACATTGAACAGTTCAGACCCTCACATTTATACTCTAAGAAAGGTACGTAACATGCAATTATAGTTTCAAAAGAAGGACTTGTATTTTATGCATTTGAATTCACTTCATTGGCCTTTGACTGAATATGTGATGTTTTGAAACATATACCTAGTTGTCCCTAAGCAGAAGGCTTATGAAGGCCTCCGTGTAATCAGTGCTAGTGTAGGCCTGAGTTGGCGGTAGCTGTAATGTCGGCCTGTGTGTCAGACTGTCTCTCAGGGCAATAAGCAGAGATATGTTGTTGTCATAAACAGAGGTTCTATTAACAGAACGTCTTGAGACCTGCTCACACAGTAGGAACGCAGCATTACTTAAAAATATCACTTTAGTTGGATTGGTTATTATGGACTACAAATGATGGGGTTTTATAATTGGTTACACAATAATTAGATACCATCATGTTTTATTTTAACAACAGTTGTGCAATTTTTTATTATAGTATCAGTGACTGGTGGGCCACTTTCTTGTTATTTAAGACCTTTACCTCTGCAACTCCAGCTCTTACTTAATACAACCTGGGAAGGACTTTAGGACAAACTCTGTGGGCTAAAGGTGAGGTTCTAAAGGTCATGTTGTGGTTCTGATTCAGGTCTATAGGTAGGTGTCACAATTGCTTTGACTAAAGCCCCGAGCCATCACCCTGCACCCTGGTCTTAACACTAACCTAACTAACCTTTCTCTAAAGGGGAGAGCTGCATCTTGCTCCTCAGACAAGACGCCTGGCCTGCAGCACTACAGCTGTTCTCCTCAGAGACAGGCCCGAAGGATTAATTAAACCTGATTCGGGGTTGGGGGATGAATTAACCCTGACTTATTCTATCATTTCACTTTCGTTTTCATGAGATGTGCGTTGACTGGCTCAGTAAATGTCCCGCTTTATGTGATGATTTTGGAAGACGTTATTTCTCAGGATGCATCTGCTTCATTGCCACG

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060042 retina morphogenesis in camera-type eye 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:

id description
K24889 IRX; iroquois-class homeodomain protein IRX

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU244616 lncRNA downstream 1055 509593 ~ 509912 (-) True G215005
TU244590 lncRNA downstream 13304 497366 ~ 497663 (-) True G214994
TU244588 lncRNA downstream 15744 492478 ~ 495223 (-) False G214992
TU244587 lncRNA downstream 15744 494249 ~ 495223 (-) True G214992
TU244576 lncRNA downstream 21837 488486 ~ 489130 (-) True G214989
TU244666 lncRNA upstream 30912 546121 ~ 546619 (-) True G215043
TU244674 lncRNA upstream 41452 556661 ~ 556907 (-) True G215050
TU244678 lncRNA upstream 42952 558161 ~ 558733 (-) True G215054
TU244689 lncRNA upstream 54968 570177 ~ 570433 (-) True G215065
TU244711 lncRNA upstream 70316 585525 ~ 586249 (-) False G215074
XR_005040023.1 mRNA downstream 260419 249038 ~ 250548 (-) False LOC118944729
XR_005040024.1 mRNA downstream 260454 249038 ~ 250513 (-) False LOC118944729
XR_005040030.1 mRNA downstream 260454 249038 ~ 250513 (-) False LOC118944729
XM_036965278.1 mRNA downstream 355396 147740 ~ 155571 (-) True irx4a
XM_036975416.1 mRNA downstream 436414 63916 ~ 74553 (-) False LOC118964342
XM_036975420.1 mRNA upstream 363791 879000 ~ 881031 (-) True LOC118964345
XM_036965348.1 mRNA upstream 1056468 1571677 ~ 1581702 (-) False LOC118936608
XR_005040037.1 mRNA upstream 1059155 1574364 ~ 1575575 (-) True LOC118944736
XM_036965320.1 mRNA upstream 1067907 1583116 ~ 1593615 (-) False LOC118944735
XM_036965332.1 mRNA upstream 1067907 1583116 ~ 1593615 (-) True LOC118944735
TU244568 other downstream 29358 481047 ~ 481609 (-) True G214982
TU244156 other downstream 331376 177723 ~ 179591 (-) False G214663
TU244160 other downstream 331376 177723 ~ 179591 (-) True G214663
TU244157 other downstream 332580 177723 ~ 178387 (-) False G214663
TU244046 other downstream 436416 70094 ~ 74551 (-) True LOC118964342
TU245090 other upstream 400750 915959 ~ 919673 (-) True G215354
TU245901 other upstream 1085017 1600226 ~ 1618140 (-) True G215950
TU245911 other upstream 1143871 1659080 ~ 1682022 (-) True G215956
TU245913 other upstream 1146480 1661689 ~ 1663067 (-) False LOC110519742
TU245915 other upstream 1411535 1926744 ~ 1952588 (-) True LOC110516567

Expression Profile