XLOC_025306 (hoxb7a)


Basic Information

Item Value
gene id XLOC_025306
gene name hoxb7a
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 23691847 ~ 23696208 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00049949
ATGAGTTCATTGTATTATGCGAACGCGCTGTTTTCCAAATACCAAGTGGCGAGTTCAGCCTTCTCTACTGGCGTGTTTCCCGAGCAAACTTCTTGCGCCTTTTCGTGCAGTTCGCAGCGGGCCAGCGGCTACGGCTCGGCTTCAACCGGTGCACCGGTCTCTTCATCATCTTCTGTCTCCCTGCCGAGCATGTACACTAACGGTACTAGTCTTTCCAGTCATACTCAAGGCATGTACCCCACTGCGTATGAGCTGGGAGCTGTCTCTTTGAACATGCACAGCTCTCTGTTTGACCATCCGAATCTACCCATGGTGAGCGCTGGCGATCTCTGTAAAGCGCAAAGCAGTGGCAAGGAAGAGCAGAGGGGCTACCATCAAAACAACGAAAACAACCTCCGAATCTACCCGTGGATGAGGAGCACAGGTGCTGACCGGAAAAGAGGCCGTCAGACCTATTCCCGCTACCAAACATTAGAGCTGGAGAAAGAGTTTCACTTCAACCGTTACCTTTCAAGACGGCGGCGTATCGAGATAGCACACGCCCTGTGCTTAACCGAGCGCCAGATCAAAATTTGGTTTCAAAACAGGAGAATGAAATGGAAGAAAGAGAACAAATCAACGGACCGCTGCTCGCCTGCTGCTGATCAAATTGGAGGCGACGaggaagaagaagatgatgagTAGCAACGCAAGTTGAAGACATAATAAGACtatactaaaatattattgattTGACTTGCTTTAATTCGGGATACACTGAATAAAAAAGTTGATACTTACAATACTGTAGGCAACGTGTCTTTATCGTCTATGTAACTTATGTTAGAGATGTTAATGTGCTAAACTATTAAATATAATACTACgaactattttaaaacattttaatatagatGTATAAACTAC
>TCONS_00049950
GGCGGTGGTGTGAGAGGCGTGGGTGAATTATGTTTAGCTTTAACAAATAACCAAAATACTGCTGCGATTGTACGTCATGTCATCATGGTTGGATGTTTTGCTGCGTGTCCGGATGGATCCAAGTGCTGACCGGAAAAGAGGCCGTCAGACCTATTCCCGCTACCAAACATTAGAGCTGGAGAAAGAGTTTCACTTCAACCGTTACCTTTCAAGACGGCGGCGTATCGAGATAGCACACGCCCTGTGCTTAACCGAGCGCCAGATCAAAATTTGGTTTCAAAACAGGAGAATGAAATGGAAGAAAGAGAACAAATCAACGGACCGCTGCTCGCCTGCTGCTGATCAAATTGGAGGCGACGaggaagaagaagatgatgagTAGCAACGCAAGTTGAAGACATAATAAGACtatactaaaatattattgattTGACTTGCTTTAATTCGGGATACACTGAATAAAAAAGTTGATACTTACAATACTGTA
>TCONS_00049951
GCTCAAAAGCGGCCCCCATTTGTCGACAGTCTGCTGGAAACGGAAATGCAGGGACAGCATAAAGTCACTGACCGTGCATGGGCAAGGTTGTGAAAGtctagttagattttttttcctttaaacctGCAGCTAAAAAGATGGATATTTTACGAAGGTGGCTTCTTTATCTAAATGGATAGATGAACACTTCAGCGCTTATGTGTACGGGAACTAACTAGATCCTGTTGTTGACTTTGGTCATGTTTAGAAGGAAGTCTGAACGCCAGAGCTCCATTAGAGTCACGGGAGAGTGCAAGCCAGAGAATACACGTACAGCAGGGGTGCTGACCGGAAAAGAGGCCGTCAGACCTATTCCCGCTACCAAACATTAGAGCTGGAGAAAGAGTTTCACTTCAACCGTTACCTTTCAAGACGGCGGCGTATCGAGATAGCACACGCCCTGTGCTTAACCGAGCGCCAGATCAAAATTTGGTTTCAAAACAGGAGAATGAAATGGAAGAAAGAGAACAAATCAACGGACCGCTGCTCGCCTGCTGCTGATCAAATTGGAGGCGACGaggaagaagaagatgatgagTAGCAACGCAAGTTGAAGACATAATAAGACtatactaaaatattattgattTGACTTGCTTTAATTCGGGATACACTGAATAAAAAAGTTGATACTTACAATACTGTAGGCAACGTGTCTTTATCGTCTATGTAACTTATGTTAGAGATGTTAATGTGCTAAACTATTAAATATAATACTACgaactattttaaaacattttaatatagatGTATAAACTACATTTAAGACGTGAATACTAATACTGTATAATAG
>TCONS_00049952
GCTCAAAAGCGGCCCCCATTTGTCGACAGTCTGCTGGAAACGGAAATGCAGGGACAGCATAAAGTCACTGACCGTGCATGGGCAAGGTTGTGAAAGtctagttagattttttttcctttaaacctGCAGCTAAAAAGATGGATATTTTACGAAGAAGGAAGTCTGAACGCCAGAGCTCCATTAGAGTCACGGGAGAGTGCAAGCCAGAGAATACACGTACAGCAGGGGTGCTGACCGGAAAAGAGGCCGTCAGACCTATTCCCGCTACCAAACATTAGAGCTGGAGAAAGAGTTTCACTTCAACCGTTACCTTTCAAGACGGCGGCGTATCGAGATAGCACACGCCCTGTGCTTAACCGAGCGCCAGATCAAAATTTGGTTTCAAAACAGGAGAATGAAATGGAAGAAAGAGAACAAATCAACGGACCGCTGCTCGCCTGCTGCTGATCAAATTGGAGGCGACGaggaagaagaagatgatgagTAGCAACGCAAGTTGAAGACATAATAAGACtatactaaaatattattgattTGACTTGCTTTAATTCGGGATACACTGAATAAAAAAGTTGATACTTACAATACTGTAGGCAACGTGTCTTTATCGTCTATGTAACTTATGTTAGAGATGTTAATGTGCTAAACTATTAAATATAATACTACgaactattttaaaacattttaatatagatGTATAAACTACATTTAAGACGTGAATACTAATACTGTATAATAGCCTAAATTCCTTATATATAGGCACAATACTATATTATTAACATATGTTTCATAGCATTTGTGAATCTTGTATGTGTGACCTATTATTCGTTCGGTCTATTATCCACTGAGATCAAACAAAGAAGGGAGCAAGCTACTTTTAATTATTTCGAATTTTGATATACCCcttttctgtatttttgtgtaaatatttgtc

Function

symbol description
hoxb7a 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 central nervous system; mesoderm; neural tube; somite; and tail bud. Orthologous to human HOXB7 (homeobox B7).

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-000329-2 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 central nervous system; mesoderm; neural tube; somite; and tail bud. Orthologous to human HOXB7 (homeobox B7).

Ensembl:

ensembl_id ENSDARG00000056030

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00049949 False 903 mRNA 0.45 2 23691847 23695980
TCONS_00049950 False 487 mRNA 0.44 2 23692462 23695866
TCONS_00049951 False 832 processed_transcript 0.41 2 23694156 23696013
TCONS_00049952 True 934 lncRNA 0.38 3 23694156 23696208

Neighbor

gene id symbol gene type direction distance location
XLOC_025305 hoxb8a coding upstream 1366 23687909 ~ 23690481 (+)
XLOC_025304 hoxb9a coding upstream 9411 23677351 ~ 23682436 (+)
XLOC_025303 mir196b coding upstream 18392 23673377 ~ 23673455 (+)
XLOC_025302 hoxb10a coding upstream 19984 23669267 ~ 23671863 (+)
XLOC_025301 NA coding upstream 23650 23665161 ~ 23668197 (+)
XLOC_025307 hoxb3a coding downstream 1789 23697997 ~ 23771945 (+)
XLOC_025308 hoxb6a coding downstream 7496 23703704 ~ 23705746 (+)
XLOC_025309 hoxb5a coding downstream 11483 23707691 ~ 23710095 (+)
XLOC_025310 hoxb4a coding downstream 14631 23710839 ~ 23723982 (+)
XLOC_025311 dre-mir-10c coding downstream 24443 23720651 ~ 23720745 (+)
XLOC_025429 BX649540.1 misc downstream 6552531 30248739 ~ 30249036 (+)
XLOC_025299 NA non-coding upstream 75046 23604478 ~ 23616801 (+)
XLOC_025298 NA non-coding upstream 167197 23517959 ~ 23524650 (+)
XLOC_025296 NA non-coding upstream 280326 23406471 ~ 23411521 (+)
XLOC_025313 NA non-coding downstream 234238 23930446 ~ 23967966 (+)
XLOC_025316 dre-mir-152 non-coding downstream 399749 24095957 ~ 24096036 (+)
XLOC_025317 NA non-coding downstream 424993 24121201 ~ 24133485 (+)
XLOC_025319 CR790362.1 non-coding downstream 465661 24161869 ~ 24184426 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000034_01680053_01683539 HOXB7A coding CI01000034 null 1679589 ~ 1683539 (-)