RNA id: XM_021584389.2


Basic Information

Item Value
RNA id XM_021584389.2
length 1581
RNA type mRNA
GC content 0.39
exon number 2
gene id hoxd13a
representative True

Chromosome Information

Item Value
chromosome id NC_048567.1
NCBI id CM023221.2
chromosome length 85311031
location 50134695 ~ 50136597 (+)
genome version USDA_OmykA_1.1_2020_rainbow_trout_Genome
species rainbow trout
(Oncorhynchus mykiss)

Sequence

AgtcaggcaacaaaaaaaaaaccgaAAGGGTTATTTGTTTTCATCCTTGCTTTGCATTCATGCACTGCAAAGCAATACGTTCTGGATCTGAGGGGACTATGTGAGGTTTTCACCGAGAAAAGTTGCATTGGCAGTTCGTCAAACTGAAATGGAGGGCTTGGGAGATAATATCACTTCTGTCCATCGCAGAAGTTTTTATTCCACTGCTCCCAGGACTAACCCAAGCCGGTCTGTACCAGGAGTAACGGTATACACAATTTCGGACAAACCAAACTCTTTTGGCTTAGAATCTCTTAAACCATATTCACCTCTTTCTACAGTAGCCACAAATGCGTCACTCACATTTGGCAGTCATTTGGGGAGCAGTTGTTATGGTGGCACAATTCCTGACAGCAATCTATTCCAACAGGGTGTGATGAAACCTACTTCTCAGGCGTCTCTATCTGGACACTCATCAGATAAACCAATGCATTTCTCAGGGGTTTCAAGTTCCAACATACACTGCAGTGAAATGCAGTCCAGACTGAAAGACTTTGGAAATGTTTACCAAGGTCTTTACCCAAGAATCACTGGATACATTGATGTACCTGTTGTAACAAGGGCTGGTCCTGGAGATCCGAGGCATGAGGCCTATCAGCAATTGAACTGGGCTAATAGTTGGAGCAATCCACTGTATTATGCCAGAGAACAGAAGCAGGGCTCGCAATTCTGGAAGTCATTCCTCACAGAGGAAGCAGTAATGAACCAGCCAGATGTCTGCACTTCATACCGACGTGGGAGGAAGAAACGGGTGCCCTACACGAAACTACAGCTCAAGGAACTTGAACGAGAGTACACCATTTGCAAGTTTATTACCAAGGAGAAAAGACAACGGATAGCTTCTTCCACCAACTTGTCTGAGAGACAAGTAACAATATGGTTTCAAAATCGTCGTGTCAAAAACAAGAAGCTTATGTCAAAAGATAGAGACCTTGAAACTTTCTCTTGATTTTTAAATTTCACCATTTATGAAATGCTGAATTGTCTCAGGTATTAGTCTCACAATATTTAGGTACATATTTATATtcatgtgttataatgtgtgcTGACTGATAGACTAAGCTGTTGTCAATTGTTTAGAGCAATATTAAATCATATGATGTTGAAATTGTTTTTCTACAATTCTGAAAAAAGATTTCTCCTGCTCTTTACTTAAActtttgttgttgaaattataGGGTTGGGTTATGTAGGTCAAATTCCAAGTATATTGTAAGAATATAAAATCTCCTAGATGTATTTTAAAGATTGGTCTACATTTGGGGTCCGTTTCCCCAGACAAaggttaagcctagtcctggacaacaaaaaaacattcttAATGTAGAATCTCTATTGACAGTGATTCTCAATGTAGATTCTCCATTGACAGTGCTAGTCCTGGACTAATAAGCAgtctcaatggagaatctccgtTATGGAAACATTTGTTTCAAGGTCAAAGCTTATTCGAAAAAGTTACGTGTTTTGTGTTGATAAGGTAAAATATGTTTGCCAAAGCAAATGGTGAATTAGGTATGATTGGGTCAATAAAATAGAATA

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
TU305308 lncRNA upstream 31639 50102779 ~ 50103056 (+) True G268714
TU305183 lncRNA upstream 49538 50084110 ~ 50085157 (+) False G268604
TU305184 lncRNA upstream 49538 50084110 ~ 50085157 (+) False G268604
TU305185 lncRNA upstream 49538 50084110 ~ 50085157 (+) False G268604
TU305186 lncRNA upstream 49538 50084110 ~ 50085157 (+) True G268604
TU305379 lncRNA downstream 2836 50139433 ~ 50140914 (+) True hoxd12a
TU305504 lncRNA downstream 95874 50232471 ~ 50232690 (+) True G268877
TU305583 lncRNA downstream 156088 50292685 ~ 50292893 (+) True G268956
TU305597 lncRNA downstream 175915 50312512 ~ 50312731 (+) True G268970
TU305565 lncRNA downstream 184890 50321487 ~ 50322542 (+) True G268938
XM_036964928.1 mRNA upstream 70861 50044718 ~ 50063834 (+) True LOC118944674
LOC110504188 mRNA upstream 260478 49871807 ~ 49874217 (+) True LOC110504188
XM_021597189.2 mRNA upstream 268697 49862239 ~ 49865998 (+) True LOC110520117
XR_005048018.1 mRNA upstream 367339 49757817 ~ 49767356 (+) True LOC118959582
XM_021597179.2 mRNA upstream 399233 49731876 ~ 49735462 (+) False cdca7a
XM_021597211.2 mRNA downstream 2616 50139213 ~ 50141004 (+) False hoxd12a
XM_021597212.2 mRNA downstream 8058 50144655 ~ 50146492 (+) True hoxd11a
XM_021597213.2 mRNA downstream 10214 50146811 ~ 50153227 (+) True hoxd10a
XM_021597214.2 mRNA downstream 19238 50155835 ~ 50158848 (+) True hoxd9a
XM_021597218.2 mRNA downstream 25681 50162278 ~ 50184327 (+) False hoxd3a
TU303972 other upstream 279193 49836617 ~ 49855502 (+) True G267529
TU303803 other upstream 578857 49554498 ~ 49555838 (+) True G267381
TU303780 other upstream 622220 49510803 ~ 49512475 (+) True G267358
TU300304 other upstream 3302451 46831008 ~ 46832244 (+) False LOC110520046
TU305367 other downstream 25704 50162301 ~ 50183026 (+) True hoxd3a
TU305730 other downstream 465705 50602302 ~ 50604816 (+) True LOC110520146
TU305958 other downstream 761992 50898589 ~ 50900277 (+) True G269291
TU307177 other downstream 1437383 51573980 ~ 51578683 (+) False LOC110520169
TU308945 other downstream 3030355 53166952 ~ 53172428 (+) True acvr2aa

Expression Profile