XLOC_025300 (hoxb13a)


Basic Information

Item Value
gene id XLOC_025300
gene name hoxb13a
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 23654233 ~ 23655834 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049944
ATTGCGTCAATGCAGCTGTACCAATGTAACTGAGTGTCCTGCTTTGGACTGGAGTCTTTGCAACATAATTTTCCGTCCGAATGGTGAGCGTGCTATGACCACCTCCCTGGTCCTGAATCCTCGCTGGGCAGACACGGTTATGTTTGTATATGAAAACAACTTGGATGAGCTGAAGAATATGGAGGGTTTGGTTGGAAGCGGCAATTTTGCAGCCAACCAGTGCAGGAATCTGATGGCCCACTCGGCGTTGAGTGGTCACCCGTCTAGCCTTGTCCATGGCTCCAGCTATCCCACTGTGGACGTATCGACTTCAAGTTCGGCGGAGTCGGGAAAGCAGTGCACACCTTGCCCAACAGTTCCACAGGCCTCGTCCACAGGTCCCATCCCGTACGGCTACTTTGGCAACAGCTATTATCCTTGCAGAATGGGGCGGGGTTCCCTCAAATCCTGCACGCAGCCGAGTGCACTCAGCTACACTGCAGAAAAATACATGGATACCCCGGTCACGTCTGAAGAATATCCTACCAGGGCTAAAGAGTTTGCTTTTTACCACAGCTATCCCAGTCCTTATCAGTCCATGGCCAGTTATTTGGATGTGTCAGTTGTACAGACGCTTGGAACTGGGGAGCCGCGACACGATAGTCTCCTGCCAATGGACAGCTACCAACCGTGGGCACTGGCTAACGGATGGGGTAGTCAGATGTACTGTTCCAAGGACCAGGGCCAGGCGGGTCATCTCTGGAAGTCTGCATTAGCagATGTTGTGGCCCACCAACATGACGGGGGCTCATTCCGTCGAGGTAGAAAGAAGCGGATACCTTACACAAAAGTACAACTCAAGGAACTGGAGAAAGAATATGCAGCCAACAAATTCATCACAAAGGACAAGAGGAGAAAGATTTCAGCAGTAACCAACTTATCCGAGCGTCAAATCACAATTTGGTTTCAAAATAGGAGGGTTAAGGAAAAGAAGTTCATTGCCAAAGTTAAAAACACCGCGCCATAGCTTTGAACAACTCATTTGTTTTTCTCGGTGACTTAAAAATTGAGAGAAGTTTTAAAAAGGGAGGACTTTTTTCTTGGACTGGGGGGTTGAATGTTTTCTCCTCTCAGCGCATTtacaccaaacaaataaatggatggataaaaaaatgaataaacttaataaaa

Function

symbol description
hoxb13a Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in ductal carcinoma in situ and renal cell carcinoma. Orthologous to human HOXB13 (homeobox B13).

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:0003677 DNA binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-050812-1 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be located in nucleus. Human ortholog(s) of this gene implicated in ductal carcinoma in situ and renal cell carcinoma. Orthologous to human HOXB13 (homeobox B13).

Ensembl:

ensembl_id ENSDARG00000056015

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049944 True 1170 mRNA 0.48 2 23654233 23655834

Neighbor

gene id symbol gene type direction distance location
XLOC_025299 NA coding upstream 37432 23604478 ~ 23616801 (+)
XLOC_025298 NA coding upstream 129583 23517959 ~ 23524650 (+)
XLOC_025297 nr1d1 coding upstream 158010 23488652 ~ 23496223 (+)
XLOC_025296 NA coding upstream 242712 23406471 ~ 23411521 (+)
XLOC_025295 ppp1r9ba coding upstream 306149 23247325 ~ 23348084 (+)
XLOC_025301 NA coding downstream 9327 23665161 ~ 23668197 (+)
XLOC_025302 hoxb10a coding downstream 13433 23669267 ~ 23671863 (+)
XLOC_025303 mir196b coding downstream 17543 23673377 ~ 23673455 (+)
XLOC_025304 hoxb9a coding downstream 21517 23677351 ~ 23682436 (+)
XLOC_025305 hoxb8a coding downstream 32075 23687909 ~ 23690481 (+)
XLOC_025429 BX649540.1 misc downstream 6592905 30248739 ~ 30249036 (+)
XLOC_025293 NA non-coding upstream 440904 23096442 ~ 23213329 (+)
XLOC_025286 BX322574.1 non-coding upstream 773786 22854673 ~ 22880447 (+)
XLOC_025311 dre-mir-10c non-coding downstream 64817 23720651 ~ 23720745 (+)
XLOC_025313 NA non-coding downstream 274612 23930446 ~ 23967966 (+)
XLOC_025316 dre-mir-152 non-coding downstream 440123 24095957 ~ 24096036 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_01718736_01720031 HOXB13, HOXB13AB, HOXB13A, HOXB13AA coding CI01000034 null 1718606 ~ 1720246 (-)
bowfin (Amia calva) AMCG00016669 hoxb13aa,hoxb13ab,hoxb13 coding CM030122.1 CM030122.1 27338007 ~ 27339593 (-)