XLOC_025304 (hoxb9a)


Basic Information

Item Value
gene id XLOC_025304
gene name hoxb9a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007114.7
NCBI id CM002887.2
chromosome length 62628489
location 23677351 ~ 23682436 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049947
AATCACTTCGCTCGAAGCGCACACCATAGAAGCCCGGCTCTACTTCGTAGGCGAGCGAGTAGAGAGGACTACCGTAAAGAGGGGAGTAAAGCACATTACTATTGTACATGCTTTCCCTTTAATGAGCAGTACGTTATATAATGTCCGAGAATGTCCATTTCTGGAACTCTAAGCAACTACTATGTCGATTCTATTATAAGTCATGAGGGAGAAGATCCGAATGCGTCCCGCTTCTCCAATGTACAGTACTCCAGCGCTAGACAACCGGGACCCGGCGAGCATCCCGAGTTTCCCTCTTGTAGCTTCCAGCCCAAGCCTCCAGTGTTCAGCTCTTCGTGGAGTCCATTCAGTTCCCACGCGTCTAATGGCTTACCCGCGGTCTACCATCCCTACATACCGACACAGCCAGTGCCTTCAACGGATACTCGATACCTCCGGACATGGCTCGACTGTGCCCCGAGAGCAGAGCCGCTGCCCGGGCAGGGACAGGTCAAGATGGAGCCGCTCCTGGGACATCTCGGGGAACCGCCAAAACTCGTTGGGCAGCACGAGTATATCTTGGAGTCCTCCACAGCACGGGAGATAAATTCTGGTCACAGCGCAGGATTTGAAGACAATAAGGACATATGCGAAGGCAGCGAAGACAAAGAGGGACCGGATCAAAACGACCCATCTGCCAACTGGTTACACGCTCGATCATCCCGGAAGAAACGCTGTCCATACACGAAATATCAGACCTTGGAACTAGAGAAGGAATTTCTGTTCAATATGTACCTCACCCGAGACCGAAGACACGAGGTTGCTCGTCTACTGAACTTGACGGAGCGACAAGTAAAAATATGGTTCCAAAACAGAAGgatgaaaatgaagaaaatgaataAGGACCAGCCCAAAGAATAACGCAGACTGGTACTAGGCGTTCGAGCCATTTACAAGGAGTCTTTTAATCTGGAAGCTGATACACCGTTGTTTCAATGCATTCAAGAGAAAACTCAAACGCGCACTCACACGCCATTTTCCGTATGACTGGACATTGTTAAGTCTAGAGTAAAAGGAAGAGGTGAGATGATGAAAACCTCATGTCATCTCTCCCTATACTATTATTGCATTTTATGACTTGTGTTAAAGAAACGAACATTGCATCAGGAAATAAACAGGTGATTAAGAACTGCTTTCAACAAGCTAACTAAATCTGGAATATTCTTCTTTTATAAAGTTGTTCTATGTAATTCTGCTTTCCGATCATTCCTTTTTGTCATTGACGTGTGCtaatagaaaaagaaaatgtatgtaacACAAGCCTTATTCTATATACAAGGAACGTTTTGCTTCTGTTAAGCATGTTCAAGAGGTTTGCTAAACGACAAGTGAGTTACaacacagttattattattattattattattattattattattattattattattattattattataagcagtgCTGATGCCATCTGTGAAGTTATTGTTAAAAAGTGCGTATGCTAACAGGCTTTCAAAACCTGAAGTGTACTATAAGTAAATTTGATAATTATTAGCACAATTATAAAACATCACACATCTTTGGTGACtcgattataataataataataataataataataataataataaaaacaacaacaacaataataataataataataataataatagtaatactgtCCCAGTTTTTCTTAAGATGTTTCTTGATAGCTtcagttgtgtttgttttgtttggggtTAAATTCAAGAATCAAGctgattaaattaaacaaaaatgaatcGTTTACCTATTCATTTCTGTTAAAATACTTTCTAAAATACTTATATAAAATTAGAGTTCAAGTTCCGAGTGTATGTTTGTAGCGTGCCAGTAACCATAGAATTAATTCGtgcttaaatttaacaaatttaatcACAGATTTGGTCGCAGTTGTTTACATAAATTTGCGCATGCCTTGTATTGTGTAGTTTTCTTATGTACGTGTTATTgagaaaaaaagtattaatttgcATCTGTTTTATGTACCGTAactttaatttattgtaaatacgTTAATATTTTTTTCCGTTTGAATTGAATGTTTTATATGTTGTAAGAACAATTTCAATACTTCATACTTGAATGAGCTGATACAAGTAACCTTTGATTTTGCTATTTGTTTACAAGTTTCATGTATATGTCCAGAATCATGTCCGTTCTTTGTATTGTCAGTAATGTACttttatgtatttacatatagcttttttatttgtatgttttgtttctGTGATATGACTTTACTAAAATATAGAGCGCGCCTATCTTCTGATGTCAATCGCTCTTTATATTGTTAGTGGCAAATAACAATTTCTTCAGGAAGAAACAACAGTTAGTGCTGTTTTCTGACACTatctaacacaaacaaacaataacatcGTCAATATGTTTAAACATAATGCAAAGACCCAATTTAACTCCCAACACAGCGTCTAAATTATAGGCTATTTGTACACAACTGCTCCGTCTCTTTTCatgttatagttttattttttgtgccATTGCACTGTTGATGCTGGACTCATTAAAAGTTTACATATAGACCACAAA

Function

symbol description
hoxb9a Predicted to enable DNA-binding transcription factor activity and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in embryonic skeletal system morphogenesis; regionalization; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated and transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in CNS interneuron; paraxial mesoderm; and spinal cord neural tube. Orthologous to human HOXB9 (homeobox B9).

GO:

id name namespace
GO:0006351 transcription, DNA-templated biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0009954 proximal/distal pattern formation biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II biological_process
GO:0048704 embryonic skeletal system morphogenesis biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000978 RNA polymerase II cis-regulatory region sequence-specific DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-990415-109 Predicted to enable DNA-binding transcription factor activity and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in embryonic skeletal system morphogenesis; regionalization; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated and transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in CNS interneuron; paraxial mesoderm; and spinal cord neural tube. Orthologous to human HOXB9 (homeobox B9).

Ensembl:

ensembl_id ENSDARG00000056023

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049947 True 2577 mRNA 0.37 2 23677351 23682436

Neighbor

gene id symbol gene type direction distance location
XLOC_025303 mir196b coding upstream 3896 23673377 ~ 23673455 (+)
XLOC_025302 hoxb10a coding upstream 5488 23669267 ~ 23671863 (+)
XLOC_025301 NA coding upstream 9154 23665161 ~ 23668197 (+)
XLOC_025300 hoxb13a coding upstream 21517 23654233 ~ 23655834 (+)
XLOC_025299 NA coding upstream 60550 23604478 ~ 23616801 (+)
XLOC_025305 hoxb8a coding downstream 5473 23687909 ~ 23690481 (+)
XLOC_025306 hoxb7a coding downstream 9411 23691847 ~ 23696208 (+)
XLOC_025307 hoxb3a coding downstream 15561 23697997 ~ 23771945 (+)
XLOC_025308 hoxb6a coding downstream 21268 23703704 ~ 23705746 (+)
XLOC_025309 hoxb5a coding downstream 25255 23707691 ~ 23710095 (+)
XLOC_025429 BX649540.1 misc downstream 6566303 30248739 ~ 30249036 (+)
XLOC_025298 NA non-coding upstream 152701 23517959 ~ 23524650 (+)
XLOC_025296 NA non-coding upstream 265830 23406471 ~ 23411521 (+)
XLOC_025311 dre-mir-10c non-coding downstream 38215 23720651 ~ 23720745 (+)
XLOC_025313 NA non-coding downstream 248010 23930446 ~ 23967966 (+)
XLOC_025316 dre-mir-152 non-coding downstream 413521 24095957 ~ 24096036 (+)
XLOC_025317 NA non-coding downstream 438765 24121201 ~ 24133485 (+)
XLOC_025319 CR790362.1 non-coding downstream 479433 24161869 ~ 24184426 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_01694301_01697568 HOXB9, HOXB9AB, HOXB9A coding CI01000034 null 1694041 ~ 1698427 (-)