RNA id: XM_021597220.2


Basic Information

Item Value
RNA id XM_021597220.2
length 2371
RNA type mRNA
GC content 0.39
exon number 2
gene id hoxd4a
representative True

Chromosome Information

Item Value
chromosome id NC_048567.1
NCBI id CM023221.2
chromosome length 85311031
location 50169601 ~ 50172397 (+)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome
species rainbow trout
(Oncorhynchus mykiss)

Sequence

ACTTCGATTTACTTTACTGCTTTTATATCATTTCTAATCATAACTATTTATAACATTGTATGATGGAGTGCACATCGTTTGATTGCTGGGTTGTTCCAGCTATTGTGTCTAATGGTTGTTTAAAatgatatttatatatattctattgagtAGAATCTGTTCTAATAGTGAAAGTAAATGTTCGAGTTATATGCTCTTTCAGTGTCACTTGTCATTTCATTTGTTGATTTACGTTGTTATAAAGACATCGTCCCAGTCATGCTCAGGAGAAGCCTTTTTACACGAGTCACTTTTTGGCCTGTTCACGTATCATTACAGCCAAACAGTCCTTTTCGTTTTGATAGTGAACAAAAAGtaacttgccataacaaaagttATAGGAGACTGAAATCTAAACAGATTTTAACATGGCATCAAAGTAATGCATTTTTTTCTTACGGTTTCATACGTTTTAACATTTCAATCATTGAATTATTGACTGTTTGGCATTGGTTGGTTGCCACGAGGCTCTTTCAATAGTTTTGAAAGGGATAGGGTAGATGAAATGATGAGATTCTTGTAACTTTTGGATGACCCCTTCTTGACAAAGACAGTCCCCATCAATTGTCCCCAGGCTTTATTCCCCTTTTTTTGTGCCAGGGGGACGTTTTgtatcttttgtttgtttatctgtcAGACTCACTGGCCTTAGTTTGATTTAGTATTGTAGAACAATAAGCATATTAACCATATTATTACACAAAACCATCTAAATGTCCATCTATACCCAAactttgtatttaatccattcaGATTATTTCCATTGACTGTTAGGGATGACCACAATTGATATTAAACTGTTGACATTAGGTACATAcaattttacattttatttttcagtATAGCGAGTACATTGCCAATCCTGCATTGGAACTGgttaaatatttgttttcattCAAAATAATTtcggtgttttttttttttaagtcagtgGAAATTGCTGCTGTAGGTGTGCAGTGTATACCCGTTAATGAACTAGCTTTACCTCCATTGGCCAATCTGGTCACATGGTTCCCTAACTTTATTCAGTTGACAGCAAGTAGGAGGGCTTTATGGAGGGTGGAAAAAAAGACAACTCGAGAAAAATTTGTATTTTCTACCTTCAGAAATTAATGACCATGAGTTCGTTTATGGTGGACTCTAAGTATGTGGACCCAAAATTTCCTCCTTGTGAGGAATATTCGCAAAATAGCTATATACCTGACCAGGGGACAGACTACTACGGTCCAGCGCAGGACCCAGGTTTCCAGCATCCAGGAATCTATCCACGGTCAAACTACACTGAGCAACCCTTCAGTTGTACCACTGTGCAGGGTTCTACAGTGCAGCCGCGGGGTCATGTGCATGAGCGAGCCAGCCACCCTAGCCCTTTCACTGCACAGACCGAGCCGTGTCCCCCGGTCCAAGTGACTGGCCCCCGGACTTGTGGACAGCAACAAAACACAAAGAACCAACATGGGATACAAGCCAAGCAGCCTACAGTAGTTTACCCCTGGATGAAGAAACACCACGTTACTACGGTAAACCCGGACTACACAGGACCTGAACCGAAACGGTCTCGGACAGCTTATACAAGACAGCAGGTTTTGGAACTGGAAAAGGAGTTTCATTTTAACAGGTATCTGACCAGGCGGCGTCGCATAGAGATTGCCCATACACTCGTTCTCTCCGAGCGTCAGATCAAAATCTGGTTTCAAAACAGAAGAATGAAATGGAAAAAAGACCACAAACTACCGAACACAAAGGGAAGATCTGCATCGGCTTCCAGCCAACATTTACAAAGTATTCAGAAGGATAACCAGACTGATATCACAACTTTATGAATATTGTGGGAAATTTTGAATCTTACATGAACTGTAGGCCTATAAAAACTATTTCCCATTTGACTTTGCATGATCTCAAACATGGCATTTTCGTCATAGGCAGTTACATTCAGAAGGACCCTCGATGTGTGTTGGCTCGCTGAATTGAGTCAACTTCCAACATTGTAACTGATAGGTGCTCAGAAGATACGAGTGCGTCACTACATGCTTCACATGCTTCAAAGAGGTTGCAGTAGATCGAACGAGAACTTTCGCTTTCGGACGAAAGCCTGTTAAAGAGGTTTTCATATGGTAGGCCTACTCTTCTTGCTTGCTATGGTTCTCTTTCCACCACACAAGTCAGAGTACTGCCTGAACATTTATATCTTTATTTAAAAGGGGGAAAAAACTTACAATTATGTGAAACTTTTGTACACGTTAATAGGAAATTGTCTTGTGATGAAATCAAGCTTCTAAAAAGAACCATATTTGATTCATATATTGCAAAAAATAAAATGGCCATTGCACAC

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
K09304 HOX_4; homeobox protein HoxA/B/C/D4

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU305379 lncRNA upstream 28687 50139433 ~ 50140914 (+) True hoxd12a
TU305308 lncRNA upstream 66545 50102779 ~ 50103056 (+) True G268714
TU305184 lncRNA upstream 84444 50084110 ~ 50085157 (+) False G268604
TU305504 lncRNA downstream 60074 50232471 ~ 50232690 (+) True G268877
TU305583 lncRNA downstream 120288 50292685 ~ 50292893 (+) True G268956
TU305597 lncRNA downstream 140115 50312512 ~ 50312731 (+) True G268970
TU305565 lncRNA downstream 149090 50321487 ~ 50322542 (+) True G268938
TU305566 lncRNA downstream 150372 50322769 ~ 50323146 (+) True G268939
XM_021597214.2 mRNA upstream 10753 50155835 ~ 50158848 (+) True hoxd9a
XM_021597213.2 mRNA upstream 16374 50146811 ~ 50153227 (+) True hoxd10a
XM_021597212.2 mRNA upstream 23109 50144655 ~ 50146492 (+) True hoxd11a
XM_021597211.2 mRNA upstream 28597 50139213 ~ 50141004 (+) False hoxd12a
XM_021584389.2 mRNA upstream 33004 50134695 ~ 50136597 (+) True hoxd13a
XM_021597219.2 mRNA downstream 2718 50175115 ~ 50184327 (+) False hoxd3a
XM_021597216.2 mRNA downstream 2720 50175117 ~ 50184327 (+) False hoxd3a
XM_021597217.2 mRNA downstream 4613 50177010 ~ 50184327 (+) False hoxd3a
XM_021584398.2 mRNA downstream 14768 50187165 ~ 50188694 (+) True LOC110505268
XM_021597221.2 mRNA downstream 143673 50316070 ~ 50320201 (+) False LOC110520134
TU303972 other upstream 314099 49836617 ~ 49855502 (+) True G267529
TU303803 other upstream 613763 49554498 ~ 49555838 (+) True G267381
TU303780 other upstream 657126 49510803 ~ 49512475 (+) True G267358
TU300304 other upstream 3337357 46831008 ~ 46832244 (+) False LOC110520046
TU305730 other downstream 429905 50602302 ~ 50604816 (+) True LOC110520146
TU305958 other downstream 726192 50898589 ~ 50900277 (+) True G269291
TU307177 other downstream 1401583 51573980 ~ 51578683 (+) False LOC110520169
TU308945 other downstream 2994555 53166952 ~ 53172428 (+) True acvr2aa
TU309190 other downstream 3049030 53221427 ~ 53223265 (+) True LOC110520187

Expression Profile