XLOC_025308 (hoxb6a)


Basic Information

Item Value
gene id XLOC_025308
gene name hoxb6a
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 23703704 ~ 23705746 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049955
ATGAGTTCCTATTTTGTAAACTCAACTTTCCCAGTGACTCTGCCCGGAGGACAGGAGTCTTTCTTGGGACAGATACCGTTATATTCCTCCGGATACACAGACCCTTTACGACACTATCCCGGTGCTGCTTATGGAGGTTCCAGTGTCCAAGAGAAGGCGTACCCATCCTCCTTTTACCAACAAGCGAACGGCGCTTACAGCAGGGCAACCGCCGCTGGTCCATGCGATTATGCGACAGCAAGCTTTTACAGGGAAAAGGACCCTGCCTGCGCCCTCGCCAGCATAGAGGAGCACTCGTTCGTTCTCAGTCAGGATCATCGCAAGACAGACTGCACGGGCTCGACGGGGAAAAGCATCTACCCTGAGGCCGACGAACAGAAGCCGTCAGCGCCGGTTTACCCTTGGATGCAACGGATGAACTCATGTAACGGGACCTTCGGTAACGCTGGTCGAAGGGGTCGCCAGACGTACACTCGCTACCAGACGTTAGAATTGGAGAAAGAGTTCCACTTTAACAGGTATCTGACCCGAAGACGCCGCATTGAGATTGCGCACGCACTGTGCCTGACTGAACGTCAGATAAAGATATGGTTCCAAAACCGGCGAATGAAATGGAAAAAGGAGAACAAACTGATCAACTGTTCACAAACCAGtggagaagaggaggaggagaagaggacagaatgaaattttaaatcataaaatactCCAAAAGAAAACTATGGCATAGAGGGCACCAGACTCTCTTATAACACAAATGAAGACTTTCCATCATGTTAGCAACTGTAGCATTCCTGGTAACTCATTGTAATTTCTtttgtgattcttttttttttacatgtcgtTTAACATGTGGTTTTGTGCGCTCTTACTCTGACTTTAGATTTGCTCTTATGACTGAAATGTCCATGTGGAACGAAGCTATTTGAAATTTGTGTCATATTCGTGTTTATATTTAAGCTGTGTAAGAATAAAAAATTCAATTGTAC

Function

symbol description
hoxb6a 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 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 lateral line system; mesoderm; neural plate; neural tube; and spinal cord. Orthologous to human HOXB6 (homeobox B6).

GO:

id name namespace
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: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-990415-106 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 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 lateral line system; mesoderm; neural plate; neural tube; and spinal cord. Orthologous to human HOXB6 (homeobox B6).

Ensembl:

ensembl_id ENSDARG00000010630

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049955 True 989 mRNA 0.46 2 23703704 23705746

Neighbor

gene id symbol gene type direction distance location
XLOC_025306 hoxb7a coding upstream 7496 23691847 ~ 23696208 (+)
XLOC_025305 hoxb8a coding upstream 13223 23687909 ~ 23690481 (+)
XLOC_025304 hoxb9a coding upstream 21268 23677351 ~ 23682436 (+)
XLOC_025303 mir196b coding upstream 30249 23673377 ~ 23673455 (+)
XLOC_025302 hoxb10a coding upstream 31841 23669267 ~ 23671863 (+)
XLOC_025309 hoxb5a coding downstream 1945 23707691 ~ 23710095 (+)
XLOC_025310 hoxb4a coding downstream 5093 23710839 ~ 23723982 (+)
XLOC_025311 dre-mir-10c coding downstream 14905 23720651 ~ 23720745 (+)
XLOC_025312 hoxb2a coding downstream 46404 23752150 ~ 23754831 (+)
XLOC_025313 NA coding downstream 224700 23930446 ~ 23967966 (+)
XLOC_025429 BX649540.1 misc downstream 6542993 30248739 ~ 30249036 (+)
XLOC_025301 NA non-coding upstream 35507 23665161 ~ 23668197 (+)
XLOC_025299 NA non-coding upstream 86903 23604478 ~ 23616801 (+)
XLOC_025298 NA non-coding upstream 179054 23517959 ~ 23524650 (+)
XLOC_025296 NA non-coding upstream 292183 23406471 ~ 23411521 (+)
XLOC_025316 dre-mir-152 non-coding downstream 390211 24095957 ~ 24096036 (+)
XLOC_025317 NA non-coding downstream 415455 24121201 ~ 24133485 (+)
XLOC_025319 CR790362.1 non-coding downstream 456123 24161869 ~ 24184426 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_01670204_01671915 HOXB6AA, HOXB6A, HOXB6AB, HOXB6 coding CI01000034 null 1669903 ~ 1671935 (-)
bowfin (Amia calva) AMCG00016671 hoxb6ab,hoxb6,hoxb6a,LOC105013254,LOC103045875,LOC107582892 misc CM030122.1 CM030122.1 27265887 ~ 27279334 (-)