XLOC_037571 (hoxd13a)


Basic Information

Item Value
gene id XLOC_037571
gene name hoxd13a
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007120.7
NCBI id CM002893.2
chromosome length 56459846
location 1986816 ~ 1990323 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00073807
AACGGAGATGTTATTTTCTGCGTGCATTTTTCTTGGTTTTGAGCCCATAACAGACATGAGTTAAATCCCATGCACTGAGGAATATGGACGGAGGAGGACTGGATGAAGAGTTTATAAATGTTTACCCATCTGCCTTCGGGACTCACTCAAGCCGGTGTACATCAGGAGCGCCGGTGCTCTCCGCTGTTGATCGACCGACTTCTGTATGCAATGAGTCTATCAGTCCTTACTTTTCTTTTCCATCCAATATCGGCTCTGGCTCCTTCACGTTTGGATGCCATTTGGAAAACAGTTACAAAGTTCCACAGAACGCCGTGTTCCCGCCTGGTGTTGCGAAGCAAAACGGACAGTTCGCCAATAAACCCGTGGACCACGGTGAAGCCTCCAGCTGGCTTAAAGAGTTCGCCTTTTATCAAGGCTGCGCGCGCTCCTATCCGAGAATCCCTGCCTTCATTGATCTACCTGTGGTTCAGAGAGCAATGATGGGAGATCTTAGACATGAGACTTGTTTGACAATGGAAGGCCACCAACATTGGGACTGGTCAAACAATTGCAGCAGTCAACTTTATTGCTTTCAAGACCAGACGCGGAGCCCGCATATCTGGAAACCATCATTAACAGAGGAAGCAGCAGCGGCTTCATTCTGTCAGCGCGGGAGAAAGAAGCGGGTTCCTTACACAAAATTTCAGCTGAAAGAGCTCGAGCGTGAATACAACACCACTAAGTTCATTACAAAGGAGAACAGACGGCGGATCGCTTCTTCTACCAACCTGTCTGAGAGACAAGTAACTATATGGTTTCAAAACCGACGGGTCAAGGATAAGAAGAGACCTGACGTCTGCATCAAATGTTAATCCCATTGATATCTTTGTAGAGTTGGTTTGCATAAAGTAAAGAGTATATTATAGTGGGATACAATGTAAATTATACTTAGAAGTAATGTTAAACAGTTGGTTGTATTTGTCAATCAATGAATTCTCCCGTCAATTTCCTCTTTCCCATACACTCAAAATGTTATACTCTACATTTCCTTAAATTTGAGTGCATAACTGTGTGCCATAGTTGTTTATATCAGACTTTTATATGCAAAAAAGCTATAACATtgatttcaaataaaatacaattaataataatgtacttTATATCTACAAGTTTAATTACATTGAACTGAATATAAAAGCATTATACAGAATACTATTGTGAAACTATTAAATTCATACGATCTCGGCTGTTTTCCGCCCcccaaaatgtatttatatttcgTTAAGCTCACACCTCTATAAATGTAGTTTTGTGGTCTTTTTTAAAAGTAGAACTATAATTTTATGTTGGTGTATTTTGATAAGCATAACATACAAATAATTTGTATAAAAGAGTGCTTTAGATGTGAATGGTCTACATAAACACACGATCGCGTTAAAGTATAAACTGAGTAGGCAATTTGTGAATTTTAGACTCGGTGTCTGAATAAGTTAATATGAAGTGTGCACTATTAATGAAAGCATATTTTAAGCACGCAATCAGTACAAttttatacatgcacacacataataCATTTCGATAGTTGTTTGGTAATCAAGTGACAAGTTAATTCTTCCGGGGGAATAAACAACTCCTTAAAAATCTGCTCAAAaatgtgtgctgtattttaaGATAAAACTGCACTTATAAAAATACCTAAACATCA

Function

symbol description
hoxd13a 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. Is expressed in several structures, including cloaca; mesenchyme; pectoral fin bud; periderm; and tail bud. Human ortholog(s) of this gene implicated in brachydactyly-syndactyly syndrome; clubfoot; cryptorchidism; and dysostosis (multiple). Orthologous to human HOXD13 (homeobox D13).

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-990415-119 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. Is expressed in several structures, including cloaca; mesenchyme; pectoral fin bud; periderm; and tail bud. Human ortholog(s) of this gene implicated in brachydactyly-syndactyly syndrome; clubfoot; cryptorchidism; and dysostosis (multiple). Orthologous to human HOXD13 (homeobox D13).

Ensembl:

ensembl_id ENSDARG00000059256

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00073807 True 1687 mRNA 0.39 2 1986816 1990323

Neighbor

gene id symbol gene type direction distance location
XLOC_037570 hoxd12a coding downstream 802 1981882 ~ 1986014 (-)
XLOC_037569 hoxd11a coding downstream 8726 1975818 ~ 1978090 (-)
XLOC_037568 hoxd10a coding downstream 16745 1967707 ~ 1970071 (-)
XLOC_037567 hoxd9a coding downstream 21089 1964005 ~ 1965727 (-)
XLOC_037565 hoxd3a coding downstream 26899 1937049 ~ 1959917 (-)
XLOC_037572 NA coding upstream 160599 2150922 ~ 2173197 (-)
XLOC_037573 NA coding upstream 190196 2180519 ~ 2207258 (-)
XLOC_037574 BX255915.1 coding upstream 236140 2226463 ~ 2277636 (-)
XLOC_037575 CU639436.1 coding upstream 340538 2330861 ~ 2337303 (-)
XLOC_037576 NA coding upstream 392018 2382341 ~ 2389808 (-)
XLOC_037566 dre-mir-10b-1 non-coding downstream 30893 1952956 ~ 1955923 (-)
XLOC_037564 NA non-coding downstream 50647 1931428 ~ 1936169 (-)
XLOC_037558 NA non-coding downstream 206435 1463769 ~ 1780381 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000353_00313956_00315335 NA coding CI01000353 null 313956 ~ 315734 (+)