RNA id: XM_021597214.2


Basic Information

Item Value
RNA id XM_021597214.2
length 2711
RNA type mRNA
GC content 0.40
exon number 2
gene id hoxd9a
representative True

Chromosome Information

Item Value
chromosome id NC_048567.1
NCBI id CM023221.2
chromosome length 85311031
location 50155835 ~ 50158848 (+)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome
species rainbow trout
(Oncorhynchus mykiss)

Sequence

AACCAATCCCTGAAGATTAAGCCAGCAAAAATACTATGATTGTTCAGAGGGAAGGTTTCCGTAACAGTGTAACCTTTTATATGACTACGAAGGGATCCAAAAATGTCGACCAGTAGCACTCTAAGTAACTATTATGTGGACTCTATAATGGGGCATGAAGTGGAGGATGTGTACGGGGCGCGTTTTATCCAGGGTCCGCACACTACGACCTCAAGGCCATCAGGTGTTGGGGACAATGCAGATTTTTCCTCCTGCAGTTTTGCACCCAAGTCAGCCGTTTTCCCAGCGTCTTGGTCCTCTGTTCACACGCAGTCCACTGCCGCAGTGTCAGGGATTTACCATCCTTACGTCCACCAGTCCCATCTCTCCGCAGCAGACAGCAGATATGTTCGGTCCTGGATAGACCCAATTTCTAACGTTTCTTTCTCCGGCTTTCACTCTAACAGTCGGCATTATGGAACCAAGCCCGAAAGTTTACCACCGAAAAGGACTGAGAGTGCCACTTTTGAGACAGAGACTCCGGTGGTCGACCCTGGCCCTGATTACGCATGTGGAGTATCCGAATGCCCAGAAAAAGAGAGCGTTGGCAGTGATATGTCGAGTCACAGCGAGCCTAAAgaagagaaacaacaacaacaacttgaCCCAAaCAACCCTGCAGCAAACTGGATTCATGCACGTTCAACAAGGAAGAAGCGATGTCCATACACGAAATATCAGACACTAGAACTGGAAAAAGAATTCCTCTTCAACATGTATTTGACACGAGATCGACGATACGAAGTTGCTCGAATTCTCAATTTAACTGAAAGGCAGGTCAAAATCTGGTTCCAGAACAGAAGAATGAAAATGaaaaagatgaacagagagagaggcagtaagGATCACTTATAACTAGACTGGGTGTAGTCCCTCGCCTTTTGATGTATCATATTGTTGTGATTACTTAGAATAAAAGGTTGGTTGGAGCTTAAGCTATGCATTTTTGTGTTGATGTATCAAATGGAAAGGTTGACTCAACATGCCCGGAAATACGCTCTTTCTTTTTTGTTTTAATCAAAGTAAATGTTGAGTCTTAAACGAATTACTCTATTGATTAACCCGAGCTCGAGTATTTATGCCCAAAATGAGACCAGGGAATAATATGCTTGCGTATATAGTTTTCTTAGTCGTGTAGCCTTTTAGAAAAAAAATCGAATGTTTTAAGAAGATGCATTTATGCTTATATTTCGGCGAAAGAATCCTCACGCAAATTGGAAATGATTTAACAAAGTAGAGGCCAACTGAGTATGTTTGTCCTACTCTAGGGCAAGAATTTAAAACGAAAGGGTCATGTTTTTGAGTATTTATGATATTGTCATCGTGTTTTTTCTGAGGTTGCTAGTTTTGAAAAAAGACAAGAAAGCTATTGGGCGTAGCCTTAATCATACATAGGCTAATATTCCTGCATTTTTACAATCCAATTCCGGCTGTATTTAACCGTTAAGTTGTTCTTAAATCACCTTTTCTGCTCAGTGGTTTTGCAGTGGTTGTCCCTATATAGACATGCTTGTTATTAGCCTAGCTACATTGtatttgaatatatatatataatatatatgtatatatttcaatttgaGATGCATTGCTGTATATAGTTATTCATGACGCTCTGAACACCAATTCAACAACGTGTATTAGCCGACTCTTAATATAAAGCTATGGGCTAGTGTAGGCCCCATCGCATCAATGCAGTACTTCGTAAGAATTGAGAGGGAGGACTAATAACGCCTTATTGCAAACATAATTAGATGGGTTGATGAGGGGCAACGTAGGGTTAATGATAACGTTTCTTTCACTTAAATACATTCATTTTGGTTAATCTGTATGAGCCTGGAGATTCAATGATTGGACATTTCGTTGTCTTTAAAAAACAATGTTTAAGGTCAGCAGAATGAAACATCTAAAAGGTGCCACTTGGTGTAGTGAACTACCATTTCAGGATTGTTTTCCTAGTATGAATTTGGCTTACAAGGTGGTTGGACTTCACTTGAAAAGTAGGAGAATGAACATGGTTTAAAAATACTAGTAATAAAGAATTTATGATTGGGAGAGGTGTTGCACGGATTTCCAATTTATTGTCCAACCTGTACGTATAATTGCTTTAAAGCAGGAAGAAACGTGGTCCAATAAACCCATATAGATGGCTAGACGTCTGGTCTAAATGAGTTTATGAGCCAGGGCAATAATTGCACTCTCCTTTGAAACACTCTTACTTGGGGTGTTTGAGTCTGTTGCTGACTAACAGAAATGCAGGCATTTTTTTTTCTACAGGGTGTCTGGTCGATAAATTGTCTGTCTTCGTGACTGAGAGGAAATCAGACCCCCTAATGGATAGAAAGTCACGTTTATTCATCAACTGCATTTCCTATTGAGAGGGCAAAACTTCACTTTGACTGCTGCATAGAAGGCCGTTTACAGCGGTGGATCTATTGGCACTGCAAGGGTGGATTTAGACCCTGTTTCTGAAATTCCATGAAATGTCACATGTAATTACTGTtctgtgtgtaaaaaaaaaaaagccctgCGTTTTATGTGAAAAAAACGTACATTGTTTATCAGGGGGTGTTGAAACATCTGAGAATACAGTTGGATTTTGATGCATAATTTGTAATCGCTCTGGTTACTTTGATGAAAATAAATGATGATGATTGACACATTAATTCCCCCTA

Function

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development 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
K09300 ABDB; homeobox protein abdominal-B and related proteins

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU305379 lncRNA upstream 14921 50139433 ~ 50140914 (+) True hoxd12a
TU305308 lncRNA upstream 52779 50102779 ~ 50103056 (+) True G268714
TU305184 lncRNA upstream 70678 50084110 ~ 50085157 (+) False G268604
TU305504 lncRNA downstream 73623 50232471 ~ 50232690 (+) True G268877
TU305583 lncRNA downstream 133837 50292685 ~ 50292893 (+) True G268956
TU305597 lncRNA downstream 153664 50312512 ~ 50312731 (+) True G268970
TU305565 lncRNA downstream 162639 50321487 ~ 50322542 (+) True G268938
TU305566 lncRNA downstream 163921 50322769 ~ 50323146 (+) True G268939
XM_021597213.2 mRNA upstream 2608 50146811 ~ 50153227 (+) True hoxd10a
XM_021597212.2 mRNA upstream 9343 50144655 ~ 50146492 (+) True hoxd11a
XM_021597211.2 mRNA upstream 14831 50139213 ~ 50141004 (+) False hoxd12a
XM_021584389.2 mRNA upstream 19238 50134695 ~ 50136597 (+) True hoxd13a
XM_036964928.1 mRNA upstream 92001 50044718 ~ 50063834 (+) True LOC118944674
XM_021597218.2 mRNA downstream 3430 50162278 ~ 50184327 (+) False hoxd3a
XM_036974475.1 mRNA downstream 8068 50166916 ~ 50184327 (+) False hoxd3a
XM_021597220.2 mRNA downstream 10753 50169601 ~ 50172397 (+) True hoxd4a
XM_021597219.2 mRNA downstream 16267 50175115 ~ 50184327 (+) False hoxd3a
XM_021597216.2 mRNA downstream 16269 50175117 ~ 50184327 (+) False hoxd3a
TU303972 other upstream 300333 49836617 ~ 49855502 (+) True G267529
TU303803 other upstream 599997 49554498 ~ 49555838 (+) True G267381
TU303780 other upstream 643360 49510803 ~ 49512475 (+) True G267358
TU300304 other upstream 3323591 46831008 ~ 46832244 (+) False LOC110520046
TU305367 other downstream 3453 50162301 ~ 50183026 (+) True hoxd3a
TU305730 other downstream 443454 50602302 ~ 50604816 (+) True LOC110520146
TU305958 other downstream 739741 50898589 ~ 50900277 (+) True G269291
TU307177 other downstream 1415132 51573980 ~ 51578683 (+) False LOC110520169
TU308945 other downstream 3008104 53166952 ~ 53172428 (+) True acvr2aa

Expression Profile