XLOC_025312 (hoxb2a)


Basic Information

Item Value
gene id XLOC_025312
gene name hoxb2a
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 23752150 ~ 23754831 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049966
TACACAATTATTAAAGCCCGCAAATGCCGCCATAGCAGGAGCGCAAAATAAATCATAGCTTTTTGGATGTTATTTTTTGCGTGTGTTGGTGTCGCTGGACGCCCTTTTTGCCCAGGCGAAGCGATGAATTTTGAATTTGAGAGGGAGATTGGGTTCATCAACAGCCAGCCTTCCCTTGCAGAGTGCCTGACGTCTTTCCCCGCTGTCCTGGAGTCATTTCAAACTTCATCAATCAAGGACTCGACAGCAATTCCACCTCCTTTCGAGCACACCATCCCAAGTCTGAGTCCCTGCACAGGCAACCAGGCGCGACCGAGGAGCCAAAAGCGAACTGCCTCCAATGGCCTCCAGCTTCGGACACAAACAGCACCGCCGACGCAGCACCAGCAAGGCCCGGCTCCGCTGTCGGGTGGCGCGCCCCTGGCCCACGAGTTCCCATGGATGAAGGAGAAAAAATCCTCGAAGAAGTGCCCCAAGCCCGGAGCCACTGCAGCTGCAGCAGCAGCCTCCCCCTCTCAGGCATCCTCCGGCTACACAACCGCGGGACTGGAGTCCCCGACAGAGATTCAAGGTGGACTCGATAATGTTAGCGGTTCGCGGAGGCTGAGGACCGCGTATACCAACACGCAGCTACTTGAATTGGAGAAGGAGTTTCACTTTAACAAATACCTTTGTCGGCCCAGGCGCGTTGAAATTGCAGCACTTTTGGATCTAACCGAGCGACAAGTCAAAGTGTGGTTTCAAAATCGACGCATGAAGCACAAACGACAAACTACACACCACCGGGACGGCCAAGAAGGCGAGCCCAGCGGTTTTGACCTCCTAGAGGGAACTGACGCTTCTTCACCCTATTCGAGTCAGTCGTTGGAAGTATCTGGTTCTGGCTCGGCAGCACCCTCTGAGAGTGAGACGTGTCCGACAACTGCCGCCTACACGAACAGTTCGGACAAAAGCCAGCCCACGCCTGAAGAGGGCCAAGCGAGCCAGCCGGAGCCAGCATCTGTCCCTGACACAGCGGTTCACTCCCCCCCGTATCCAACGCCTACTGCAGATAACCCCACCACAATGGCTGAGGGCCGAGCAGCTGGGCCGGAGCATTCGTTCACAGAGCCGCAGGATGCCACCTCTCTCCCAGATTTGAATTTCTTTTCGACGGACTCCTGCCTACAGATTTCGGACGCTTTATCACCGAGTTTGCAAAGCTCCCTGGACAGTCCAGTTGATTTCTCCGAGGAAGACTTTGACTTGTTTACGAGCACCCTTTGTACTATAGATCTGCAACATTTACAGTTCTGaacaaaaatcacatcaaaacgaATTCAAGAACTATCGAACTCCATCGCAATGCAGTGTCATGAATGCTTCTCGACCGCAACATTCCTATAAGACAAAAAGAGTGAAACGTCTACCTAAAGTTTTTatgaaaaagaaaagcaaaaaaggCGTAATGCAATGCCTAAACGGAAATAAATTGTccattattttgaaaatatgatGTAATCTTTTTCAATACACATCGGGATGGCCCATGTCGAAGTATCAGGTATTTTATTGCCTTTTGATTGTCGGATTTAGTTTATGTCTACTAACAGATGAATAGTTGCGGACTTTTTTTCAGTGAAACTCAATCATTGGAATCTCAGGAATTGTGTCAGACATAAGGGTAGTTGAACTGCTTTTAGGAATTCTCCCAAGACGGGCGTTGTCCCTATTGAATAATTTTAGACCTAGTTTATTTATTGAGATCCTTTAATAGtaaatttcaaatttatttattgtacGTTATTTTCAtagttgaaataataaaaataaaacaaaaacaatacataaaa

Function

symbol description
hoxb2a 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 active in nucleus. Is expressed in several structures, including hindbrain; hindbrain neural keel; hindbrain neural plate; neural crest; and pharyngeal arch. Orthologous to human HOXB2 (homeobox B2).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0007275 multicellular organism development biological_process
GO:0000122 negative regulation of transcription by RNA polymerase II biological_process
GO:0045944 positive regulation of transcription by RNA polymerase II 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-990415-103 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 active in nucleus. Is expressed in several structures, including hindbrain; hindbrain neural keel; hindbrain neural plate; neural crest; and pharyngeal arch. Orthologous to human HOXB2 (homeobox B2).

Ensembl:

ensembl_id ENSDARG00000000175

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049966 True 1832 mRNA 0.48 2 23752150 23754831

Neighbor

gene id symbol gene type direction distance location
XLOC_025310 hoxb4a coding upstream 28168 23710839 ~ 23723982 (+)
XLOC_025311 dre-mir-10c coding upstream 31405 23720651 ~ 23720745 (+)
XLOC_025309 hoxb5a coding upstream 42055 23707691 ~ 23710095 (+)
XLOC_025308 hoxb6a coding upstream 46404 23703704 ~ 23705746 (+)
XLOC_025306 hoxb7a coding upstream 55942 23691847 ~ 23696208 (+)
XLOC_025313 NA coding downstream 175615 23930446 ~ 23967966 (+)
XLOC_025314 cbx1a coding downstream 295212 24050043 ~ 24071582 (+)
XLOC_025315 copz2 coding downstream 339750 24094581 ~ 24111412 (+)
XLOC_025316 dre-mir-152 coding downstream 341126 24095957 ~ 24096036 (+)
XLOC_025317 NA coding downstream 366370 24121201 ~ 24133485 (+)
XLOC_025429 BX649540.1 misc downstream 6493908 30248739 ~ 30249036 (+)
XLOC_025303 mir196b non-coding upstream 78695 23673377 ~ 23673455 (+)
XLOC_025301 NA non-coding upstream 83953 23665161 ~ 23668197 (+)
XLOC_025299 NA non-coding upstream 135349 23604478 ~ 23616801 (+)
XLOC_025298 NA non-coding upstream 227500 23517959 ~ 23524650 (+)
XLOC_025319 CR790362.1 non-coding downstream 407038 24161869 ~ 24184426 (+)
XLOC_025323 NA non-coding downstream 462357 24217188 ~ 24217511 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_01621979_01623991 HOXB2, HOXB2A coding CI01000034 null 1621789 ~ 1624069 (-)
bowfin (Amia calva) AMCG00016664 hoxb2 coding CM030122.1 CM030122.1 27210523 ~ 27212922 (-)