RNA id: XM_026916726.2


Basic Information

Item Value
RNA id XM_026916726.2
length 2565
RNA type mRNA
GC content 0.39
exon number 2
gene id hoxb9a
representative True

Chromosome Information

Item Value
chromosome id NC_047607.1
NCBI id CM018553.1
chromosome length 26458119
location 9737003 ~ 9741333 (-)
genome version GENO_Phyp_1.0_2019_striped_catfish_Genome
species striped catfish
(Pangasianodon hypophthalmus)

Sequence

AGGCTCGCGAAAAAAGACTGACCAATCATTTTGCTCGAAGCACACAGCATAGCAGCTCGACTCCACTTTGTTGGAGAGCGAGTACAGAGAGCATCTTGGATAGGGGAAAGCCCAGTTCTATGGTATATGGTTTCCCTTCAATGAACCGCACATAGTATAATGTCCGAGAATGTCCATTTCTGGACCTCTAAGCAACTACTATGTCGATTCCATCATAAGTCATGAAGGGGAAGATCCGAGCGCTGCCCGATTCTCCAATGTACAGTATTCCAACACTAGGCAACCGGGAACCGGGGAACATCATGAATTCCCTTCGTGCAGCTTTCAGCCCAAGCCTCCTGTGTTTAGTTCGTCATGGAGTCCTTTCAGTCCCCACACGCCCAACAGCTTACCGGCGGTCTACCATCCCTATATCCCAGCGCAGCCCGTGCCATCGACGGACACCCGGTACCTTCGCACATGGCTCGACTGTGCACCGAGAACCGAGCCACTGGACATCCAGAGCCAAGTCAAGATGGAGCCACCCCTGGGACACCTCGAGGAGCCCCCGAAGATTGGAGTACAGCACGAGTATGTTTTGGAATCCTCCTCAGCTCGGGAGATAAACCCCGGCCACGGCTCTGGATTTGAAGACAGCAAAGATATTTGTGACGGCGGTGAAGACAAAGAGGGACCGGATCAAAACGATCCATCAGCCAACTGGTTACACGCTCGCTCGTCACGGAAAAAGCGATGTCCATACACTAAGTATCAAACCCTGGAGCTCGAGAAGGAATTCCTCTTCAACATGTATCTTACCCGGGACCGGCGACACGAGGTAGCGCGCTTGCTGAACTTGACGGAGCGGCAAGTTAAAATTTGGTTCCAAAACCGAaggatgaaaatgaagaaaatgaataaGGACCAGTCCAAGGAATAAATGGACAAGTGTGGGTGCCCATCCTTTACCCCTTTTATCACAATTATGCTGACCTCTGGACAGTAATACAAGATGTTTGCAGCCTGTGctacacattttttatattctgaGATGCAGATCAACACTAAAACCTGAGTATTCTTTTTAGAAAGCTACTTGAAGAAGGGCAAGAACACTAGTAACCAACTATAAAACTACGTCAAAAGAAAATCATGTAATATACATGAGTAGGCTGTATACCTACTCCTTGTCCTCTGTTTTGAATTTCCTTTCCACTTTActttataaacagaaatataagtACAGGTACttgcatatttatgttttaattgaAAGAAACTTTACTTTGTAGACATTTTGTGgacaatgttattttattcaatGGCAATAAGTGCGGTTACAACGTATTCCTataacaaaactgaaaaattattattattattattattattattattattattattattattattattattattattattatttcttgtggtaagggaaattattttaattgtgcCGTGACAAATATTCGGATATGCATTCCTTAATGGATAAAATGCTTCGAGGTTACCTTTTGCATTTGTTAAATTTTAATCAAGGATACTGATACTGGAAGAAAATTGGTCTTTCCTCTGAATATGTCTCCATGAATAAGTTTAAATCTATAGCAGCCTAATTCGTCTTGCTTTTCTTAATGGTTTGGATCGACCTAGAGTCATACATTGAAGGATTTGAAGAATAAACTGTGTTGCAGACTTTGTAGTAGATAATGCcatattaatgtaatgtaatattccAAGTTTTCGACGTGAAGCAACTATATAAAGCAAGGCTTTTTTAAAGCAAGGTCTAGCAACATTTAAACCTTAATTGTATACTACGTTACTCCGTTTAATCTTAATTGTTGCCCCAGTTATCAAATGAAGGAGGAATTAACTTATAGACTGTATCTGctggatgtgtgtatatgtatgtagcTAGCTTGTGAGTAACATTTCGGTTTTAAACTAGCAGTGGTTGTAAAAGTTTACATGCTTTAGCGCATGCCTTGTAAAGTTTTAGTTACCTTTTACTTGATTTTGATATTAGGTAGTACAATGCTAAGCTCTTCCTTGTGTAGTATTAGAATGATAGTTATAATTTATTCCAAATGttattgcttttcttttcagtggaatgttttttttttacattgtataAAAAGAGGAGATTTTATAGCCTACTTAAATAAGcaaatgttctttctttttttcagacacTGTTTACATATTGTTGTCCATAAGTCTTTGAGATCTGTGTTAACACAAAAGTATTATGTTGTAAAGTATACGTTTGCTCAACATTGCATTGTTTTGCTTGTGAAGAAATAGTCTCCGAATGGACCTTTCTGTAGTCGCGTGGGCGTCTGTCTTCAACTTCCCTTGAGGTGTGGAATTTCTCCAGTTTTCCTCAAACGGTGTCACAACCACCGacaaactgacagacagacacagacccATATTACAAGTTTACACGGATCACTGTCTGAGTTCCTCTCATTGGCGTCTATAactgatgtatattttttacaAAGGATAAACCAATActccacattcattaacataaaccGTTCCTActgaataaacacagaaaacctA

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
K09294 HOX_9; homeobox protein HoxB/C/D9

JBrowse2

Neighbor

RNA id RNA type direction distance location representative gene id
TU246919 lncRNA downstream 5556 9729869 ~ 9731447 (-) False hoxb8a
TU246838 lncRNA downstream 231253 9494623 ~ 9505750 (-) True G208391
XR_004579419.1 lncRNA downstream 290899 9441986 ~ 9446104 (-) False LOC117598997
XR_004579418.1 lncRNA downstream 290953 9441986 ~ 9446050 (-) True LOC117598997
TU246658 lncRNA downstream 613122 9122196 ~ 9123881 (-) False LOC113527952
TU246954 lncRNA upstream 5163 9746496 ~ 9748039 (-) True G208473
XR_004579453.1 lncRNA upstream 88294 9829627 ~ 9844421 (-) False LOC117599011
XR_004579454.1 lncRNA upstream 88294 9829627 ~ 9843423 (-) False LOC117599011
XR_003402943.2 lncRNA upstream 95917 9837250 ~ 9838412 (-) False LOC113528446
XR_003402942.2 lncRNA upstream 95917 9837250 ~ 9838251 (-) True LOC113528446
XM_026916728.2 mRNA downstream 4437 9729851 ~ 9732566 (-) False hoxb8a
XM_026916727.2 mRNA downstream 4437 9729851 ~ 9732566 (-) True hoxb8a
XM_026916032.2 mRNA downstream 8149 9724361 ~ 9728854 (-) True hoxb7a
XM_026916420.2 mRNA downstream 19534 9715010 ~ 9717469 (-) True hoxb6a
XM_026916418.2 mRNA downstream 23261 9711139 ~ 9713742 (-) True hoxb5a
XM_026916217.2 mRNA upstream 26534 9767867 ~ 9769918 (-) True hoxb13a
XM_026917222.2 mRNA upstream 155533 9896866 ~ 9904394 (-) False nr1d1
XM_026917220.2 mRNA upstream 155533 9896866 ~ 9903254 (-) False nr1d1
XM_026917219.2 mRNA upstream 155533 9896866 ~ 9903253 (-) True nr1d1
XM_026916517.2 mRNA upstream 246783 9988116 ~ 10033085 (-) True ppp1r9ba
XR_004579397.1 other downstream 5753 9730842 ~ 9731250 (-) False hoxb8a
XR_004579423.1 other downstream 262525 9466480 ~ 9474478 (-) False copz2
TU246802 other downstream 317419 9409804 ~ 9419584 (-) False prr15la
trnac-gca_22 other upstream 643716 10385049 ~ 10385120 (-) True trnac-gca_22
XR_003402902.2 other upstream 710163 10451496 ~ 10470518 (-) False tecpr1b
XR_003402978.2 other upstream 1691177 11432510 ~ 11432628 (-) True LOC113528663
XR_003402963.1 other upstream 1795227 11536560 ~ 11536678 (-) True LOC113528647
XR_003402973.1 other upstream 1824677 11566010 ~ 11566128 (-) True LOC113528658

Expression Profile