XLOC_025309 (hoxb5a)


Basic Information

Item Value
gene id XLOC_025309
gene name hoxb5a
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 23707691 ~ 23710095 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049956
CAGTGCATTGCTATAATTCATTAATACATCATAAATCGTGAAGCACAGCGTTATAACGACCAAGATCTACAAATCAAGCCCTCTAAAACAACCTAAATGAGCTCTTACTTTGTAAACTCGTTCTCAGGGCGCTACCCAAATGGCCCTGACTATCAGTTACTAAATTATGGAACTAGCAGCAGCGCTATGAACGCTTCGTACAGGGACTCCGGCACCATGCATTCAGGCTCTTACGGCTACAACTACAATGGAATGGACCTAAGCGTCAATCGTTCAACCAGCACTGGCCACTTTGGGGCGGTTGGGGACAACTCCCGGGTCTTCCAGTCTCCAGCTCCGGAGACGCGATTCCGGCAGCCATCAAGCTGCTCGCTCGCGTCTCCGGAGCCGCTGCCTTGTTCCAACAGCGAAAGCCTTGGACCCAAAGGCTCTTCGCCCCCTTCCGACCAAAGCACCACCACTGCGGGTAATAATCTCAACAGCAACACACATTTTACAGAAATCGACGAGGCCAGTGCTTCATCGGAGACCGAGGAGGCGTCTCACAGAGCGAACAACTCTGCACCCCGGACACAACAGAAGCAAGAGACCACGGCAACCTCCACTACCTCGGCGACGTCCGATGGCCAAGCTCCCCAAATATTCCCTTGGATGAGGAAACTACATATTAGCCATGATATGACTGGACCAGACGGCAAAAGGGCCCGAACTGCATATACCCGCTATCAGACGCTAGAGCTGGAAAAAGAGTTCCATTTCAATAGATACCTCACCCGAAGAAGGAGGATAGAGATAGCCCACGCTCTATGCCTCTCAGAGCGTCAAATTAAGATATGGTTCCAAAACCGGCGGATGAAATGGAAAAAGGACAATAAACTGAAGAGCATGAGTCTGGCTACCGCAGGTAGCGCTTTCCAACCATAGTTGTATCCCAAGACCTGCTACGTGGTGTGCAAAAAATTACGCGGAAAATGAGATGAAAAAGAGATCTCAAAACATTACCTACAGAGTACTGTACATCGCGGCACCTTTCGGCATGTTATGGATGTTTTAGGCATTTTAAAATTCTACTGTGGTACTGCTATAATGAAACAAAAATTAGTGTTCATATGTTGTTCTTTTATGGTGACTTTAATTTTGGCAAGTAAATAAAACTGAAGGGAAAGAAGCTATCAATATAACGCTTGTTGTTCTTGTTACAAATATTGTTTATGTGTCAAGTGCTATGTTAATGCTTTCTTGAGAGTTAGCATGTGAGCTCTTAAATGTTATAACTTATTTACCTATACACGTGTATAACTACCTTTTGAGTTTACAGCTTAGAAACGCATCTGCCCTTGTATGAAGTGAAGCTCTAGTTTAGAGGTGACTGCAGTAAATTTAGCAGAAGCCTATGTTTCATGGTCCTCTGTTTAATCAATGTCTAAATAATCACAATCGATTTGTCATGTGTTCACAatcttctattattattattattttttttttgaaaaaaaaaaaataattaaatggtgtaaatagaCCTCGCTAGATTCTTGTACTCGTTCATACGTGTGTATAGTTGTATTccaaatatataattgtatattacTGGATCATGTTTATGTTCCAAAAAAGGTTGTATATATTGAACATTTTTATTGTGATCAGTTGGCTATTTGTAGTGGGCAGAATAAACGGCAATGTGGAAAAAAGTCATGTCAATCTGCCTGTTAGCATTTTGCCAAAATgctttttgtatttgtttgtagtTTAACTTGGAGTAAAAAATAAAGTTCCTCATATTCAAA

Function

symbol description
hoxb5a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within brain development and cell fate specification. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; mesenchyme; mesoderm; neural tube; and somite. Orthologous to human HOXB5 (homeobox B5).

GO:

id name namespace
GO:0001708 cell fate specification 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:0007420 brain development 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
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-980526-70 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Acts upstream of or within brain development and cell fate specification. Predicted to be active in nucleus. Is expressed in several structures, including central nervous system; mesenchyme; mesoderm; neural tube; and somite. Orthologous to human HOXB5 (homeobox B5).

Ensembl:

ensembl_id ENSDARG00000013057

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049956 True 1790 mRNA 0.42 2 23707691 23710095

Neighbor

gene id symbol gene type direction distance location
XLOC_025308 hoxb6a coding upstream 1945 23703704 ~ 23705746 (+)
XLOC_025306 hoxb7a coding upstream 11483 23691847 ~ 23696208 (+)
XLOC_025305 hoxb8a coding upstream 17210 23687909 ~ 23690481 (+)
XLOC_025304 hoxb9a coding upstream 25255 23677351 ~ 23682436 (+)
XLOC_025303 mir196b coding upstream 34236 23673377 ~ 23673455 (+)
XLOC_025310 hoxb4a coding downstream 744 23710839 ~ 23723982 (+)
XLOC_025311 dre-mir-10c coding downstream 10556 23720651 ~ 23720745 (+)
XLOC_025312 hoxb2a coding downstream 42055 23752150 ~ 23754831 (+)
XLOC_025313 NA coding downstream 220351 23930446 ~ 23967966 (+)
XLOC_025314 cbx1a coding downstream 339948 24050043 ~ 24071582 (+)
XLOC_025429 BX649540.1 misc downstream 6538644 30248739 ~ 30249036 (+)
XLOC_025301 NA non-coding upstream 39494 23665161 ~ 23668197 (+)
XLOC_025299 NA non-coding upstream 90890 23604478 ~ 23616801 (+)
XLOC_025298 NA non-coding upstream 183041 23517959 ~ 23524650 (+)
XLOC_025296 NA non-coding upstream 296170 23406471 ~ 23411521 (+)
XLOC_025316 dre-mir-152 non-coding downstream 385862 24095957 ~ 24096036 (+)
XLOC_025317 NA non-coding downstream 411106 24121201 ~ 24133485 (+)
XLOC_025319 CR790362.1 non-coding downstream 451774 24161869 ~ 24184426 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_01666303_01667765 HOXB5A, HOXB5AA, HOXB5 coding CI01000034 null 1666064 ~ 1667900 (-)