XLOC_025310 (hoxb4a)


Basic Information

Item Value
gene id XLOC_025310
gene name hoxb4a
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 23710839 ~ 23723982 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049957
ACCAGTAGGCCACTACAGTGCCAGTGTCTAGTCAGTGAATGTCTCTCCGGTTCTACCCATTTGAAAGCGGAAATATGGATACTGAACCGTGTACACTCAAATGAGCCCGAACTATTCAGGGGGTGAACCAAAGCGCTCGCGCACAGCGTACACGAGGCAGCAAGTCCTGGAATTGGAGAAAGAGTTCCATTACAACCGCTATCTGACCCGCAGAAGAAGGGTGGAAATCGCCCATACACTATGCCTATCTGAACGACAAATTAAGATTTGGTTTCAGAACCGGCGCATGAAGTGGAAGAAGGACCATAAGCTTCCGAACACCAAAATACGCAGTAACTCTGCAAGCACTAATTCAAGCGGCTGCCCGACATTGTGCAGCAATCAGAGCCGAGCAAGCGGACCTCCGCCAAGTCTATAGCCCTCCACTGATGACCAAGCacgtacaattataaaagaaacattttctgGAGTGTAGAACGTGGATTTTACCCGCGTTGTGTCTCCCTACTCTCCCCTGCACATTAGAAAC
>TCONS_00049959
ATGGCCATGAGTTCCTATTTGATCAACTCCAACTATGTGGACCCTAAGTTTCCACCCTGCGAGGAATATTCCCAGAGCGACTACCTACCCAGTCACTCTCCGGACTACTACAGCGCCCAGAGGCAAGACCCCTCGTTCCAGCATGAGTCGATCTACCACCAGCGGTCGGGCTGCGCCGACCCACCCTACTCATCGTGCCAGGGTCCGGGGCAGCCTGCCGCGGTTATCTCTCCGCGAGGTCACGTTCTACCCACAACCGCACTCTCGACCCCTCTCCCTGAACCAAGCCATCATTGCGACTCGGTAACTCCAAGCCCTCCGCCAGCCTGCGGTCAGACTCCCACTAGCCAAAACACTTCAACGGTCAGCTCAAGAAAAGATCCCGTGGTATACCCCTGGATGAAAAAAGTCCACGTAAACATCGTGAGCCCGAACTATTCAGGGGGTGAACCAAAGCGCTCGCGCACAGCGTACACGAGGCAGCAAGTCCTGGAATTGGAGAAAGAGTTCCATTACAACCGCTATCTGACCCGCAGAAGAAGGGTGGAAATCGCCCATACACTATGCCTATCTGAACGACAAATTAAGATTTGGTTTCAGAACCGGCGCATGAAGTGGAAGAAGGACCATAAGCTTCCGAACACCAAAATACGCAGTAACTCTGCAAGCACTAATTCAAGCGGCTGCCCGACATTGTGCAGCAATCAGAGCCGAGCAAGCGGACCTCCGCCAAGTCTATAGCCCTCCACTGATGACCAAGCacgtacaattataaaagaaacattttctgGAGTGTAGAACGTGGATTTTACCCGCGTTGTGTCTCCCTACTCTCCCCTGCACATTAGAAACAGGGATAAAGTACGAGCAAGATGTGTGGGAAAGGGCAAAGTAATGTTCATCTCTTTTAAACACTAAAATGGGTGAAGGCTTGAACACAAATGCCACTACAGATGGGCTTGCCTTCCTAGTCTGGTTCCCATTTTATCCCGCACGCCTCTCCTGCTAACTCGCCCCTTCCATAAGCACAGAAGGCGGCAGATAGTTTTCAGATTTGGTGAAGATGGATCCGCGTTTCATCTTTAATCACGCCAAACTCGGCCCCATTTGTCATGTTTACTCTGTGGTACAAGGGATGAACCGTAGGCCTGCCCATTACCTCGACGTCTAGCGTTGTGCTTAATAAATGAGTCGCTCTGTTTTGTCAAGAAGCCTTTTGTAACTCCTTTTATTCC

Function

symbol description
hoxb4a 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 anterior/posterior pattern specification; embryonic skeletal system morphogenesis; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in several structures, including hindbrain neural keel; nervous system; neural rod; pharyngeal arch; and somite. Orthologous to human HOXB4 (homeobox B4).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0001501 skeletal system development biological_process
GO:0007275 multicellular organism development biological_process
GO:0009952 anterior/posterior pattern specification biological_process
GO:0048704 embryonic skeletal system morphogenesis biological_process
GO:0005634 nucleus cellular_component
GO:0043565 sequence-specific DNA binding molecular_function
GO:0001228 DNA-binding transcription activator activity, RNA polymerase II-specific molecular_function
GO:0003677 DNA binding molecular_function
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000977 RNA polymerase II transcription regulatory region sequence-specific DNA binding molecular_function
GO:0033613 activating transcription factor binding molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-990415-105 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 anterior/posterior pattern specification; embryonic skeletal system morphogenesis; and regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription, DNA-templated. Predicted to be active in nucleus. Is expressed in several structures, including hindbrain neural keel; nervous system; neural rod; pharyngeal arch; and somite. Orthologous to human HOXB4 (homeobox B4).

Ensembl:

ensembl_id ENSDARG00000013533

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049957 False 529 mRNA 0.49 2 23710839 23723599
TCONS_00049959 True 1235 mRNA 0.51 2 23721808 23723982

Neighbor

gene id symbol gene type direction distance location
XLOC_025309 hoxb5a coding upstream 744 23707691 ~ 23710095 (+)
XLOC_025308 hoxb6a coding upstream 5093 23703704 ~ 23705746 (+)
XLOC_025306 hoxb7a coding upstream 14631 23691847 ~ 23696208 (+)
XLOC_025305 hoxb8a coding upstream 20358 23687909 ~ 23690481 (+)
XLOC_025304 hoxb9a coding upstream 28403 23677351 ~ 23682436 (+)
XLOC_025312 hoxb2a coding downstream 28168 23752150 ~ 23754831 (+)
XLOC_025313 NA coding downstream 206464 23930446 ~ 23967966 (+)
XLOC_025314 cbx1a coding downstream 326061 24050043 ~ 24071582 (+)
XLOC_025315 copz2 coding downstream 370599 24094581 ~ 24111412 (+)
XLOC_025316 dre-mir-152 coding downstream 371975 24095957 ~ 24096036 (+)
XLOC_025429 BX649540.1 misc downstream 6524757 30248739 ~ 30249036 (+)
XLOC_025303 mir196b non-coding upstream 37384 23673377 ~ 23673455 (+)
XLOC_025301 NA non-coding upstream 42642 23665161 ~ 23668197 (+)
XLOC_025299 NA non-coding upstream 94038 23604478 ~ 23616801 (+)
XLOC_025298 NA non-coding upstream 186189 23517959 ~ 23524650 (+)
XLOC_025296 NA non-coding upstream 299318 23406471 ~ 23411521 (+)
XLOC_025317 NA non-coding downstream 397219 24121201 ~ 24133485 (+)
XLOC_025319 CR790362.1 non-coding downstream 437887 24161869 ~ 24184426 (+)
XLOC_025323 NA non-coding downstream 493206 24217188 ~ 24217511 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_01652735_01654473 HOXB4, HOXB4A, HOXB4AB, HOXB4AA coding CI01000034 null 1652277 ~ 1655606 (-)