XLOC_032939 (foxd3)


Basic Information

Item Value
gene id XLOC_032939
gene name foxd3
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007117.7
NCBI id CM002890.2
chromosome length 60270059
location 32092032 ~ 32093830 (-)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00063994
AGTCCTTAAAGCCTGCTTTTCAAAGCATGTGTCATCTTGACTCTTCGATTCAAAGCCACGCGTAAGTTTTGAGGAAATACAGTGGGAAAAGAGACCCAAGCAAGCCTTCGGACTGGAGAAATATTTTCTAAAGTTGAAGTTTTCCTGACAGGCCGGGACCGACCTGCATTTATAGCCACCGGTCGTCAACTGATCTTACCTTGGGTTGCTCCAGCAGCAAAGTGCGCGGTGATGACCCTGTCTGGAGGCACCAGTGCCAGCAACATGTCCGGTCAGACCGTGCTCACAGCTGACGATGTGGATATCGACGTGGTCGGGGAGGGTGACGAGGGGATGGAGCAGGACAGTGACTGCGAAAGCCAGTGCATGCAGGACCGGGGAGATGAGGTGGAGGAGATCGAGGTGAAGGAGCGCAGCGACAGTCCCTGCGAGAGCAACGCTGACGGAGAGACCAAGGGGGATGCTCAGGAGAGCTCCACCGGTCCCATGCAAAACAAGCCCAAGAGCAGCCTGGTAAAGCCGCCCTACTCGTACATCGCCCTCATCACCATGGCCATCCTCCAGAGCCCGCAGAAGAAGTTGACGCTCAGTGGAATCTGCGAGTTCATCAGCAACCGCTTCCCATACTACCGGGAGAAGTTTCCGGCCTGGCAAAACTCCATTCGCCATAACTTGTCGCTCAACGACTGCTTCGTCAAGATCCCACGGGAACCGGGCAACCCGGGCAAAGGCAACTACTGGACCCTCGACCCCCAGTCGGAAGATATGTTCGACAACGGTAGCTTTCTGAGGAGGAGAAAACGCTTCAAGAGGCATCAGCCGGACATTCTCAGGGACCAGACCGCCCTCATGATGCAGAGTTTTGGGGCATACGGCATTGGGAATCCATATGGACGTCATTATGGAATTCACCCGGCTGCATACACGCACCCTGCCGCTCTGCAGTACCCGTACATTCCCCCTGTGGGTCCGATGCTCCCTCCGGCGGTGCCTCTCTTACCCTCCGCCGAACTGAACAGAAAAGCTTTCAGCTCTCAGCTAAGTCCAAGTCTCCAGTTACAGCTAAATAGCCTGAGCACCGCGTCGATTATCAAATCCGAGCCGTCCAGTCGACCATCATTCAGCATAGAAAACATCATCGGGGTCTCCAGCAGCTCTACGAGCGCACAGACTTTCCTGCGGCCACCCGTGACGGTGCAGTCCGCCTTACTGAGCGCTCAGTCCCTGTCCTTAACCCGGACATCAGCTGCCATCGCGCCCATCCTCAGCGTCCCGTCAAATATCATCTCCGGACAGTTTTTACCGACAGCGTCCACAGCAGCGGTATCGAAATGGCCTTCTCAATgataatcaaaatatttttagacatatatatatacatatatatattttaaagacgaTACAGCACGAACTATAGGCAGCACTGGACAATTCGTCCGCCCCAATGTAGCCATGTAAagacttttgagaaaaaaaagaaaattcataaTCAAAAAGGAATGCTTTCAGTACAGGTaatgtttgtaaatatttgtacAAAGAAATTAATTTACATGTCCTTCTTTCTATTTCATTTCGTTGTTTAAACTTATAGTTGAGTGAatcttattttttcatattttgttttcatCTTGAAAGATGTGATGTTTCTGCCCTGTTTTccaatatgaaatattaaactgTTCTTATTGAAAGAAGACTgaaaaaaagtatgtttataaaattttaaatctaTGTATTATATGTAGCTATATTGTGTTGTAAATCAACTTCATTtgttaataaatgaaaacaatcca

Function

symbol description
foxd3 Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Acts upstream of or within several processes, including iridophore differentiation; negative regulation of macromolecule metabolic process; and nervous system development. Predicted to be located in nucleus. Is expressed in several structures, including mesoderm; nervous system; neural crest; neural keel; and neural plate. Human ortholog(s) of this gene implicated in vitiligo. Orthologous to human FOXD3 (forkhead box D3).

GO:

id name namespace
GO:0060351 cartilage development involved in endochondral bone morphogenesis biological_process
GO:0010629 negative regulation of gene expression biological_process
GO:0097066 response to thyroid hormone biological_process
GO:0048484 enteric nervous system development biological_process
GO:0048485 sympathetic nervous system development biological_process
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0006357 regulation of transcription by RNA polymerase II biological_process
GO:0001755 neural crest cell migration biological_process
GO:0006366 transcription by RNA polymerase II biological_process
GO:0030154 cell differentiation biological_process
GO:0050931 pigment cell differentiation biological_process
GO:0050935 iridophore differentiation biological_process
GO:0051216 cartilage development biological_process
GO:0009653 anatomical structure morphogenesis biological_process
GO:0045892 negative regulation of transcription, DNA-templated biological_process
GO:0014032 neural crest cell development biological_process
GO:0048937 lateral line nerve glial cell development biological_process
GO:0030318 melanocyte differentiation biological_process
GO:0007422 peripheral nervous system development 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:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG: NA

ZFIN:

id description
ZDB-GENE-980526-143 Enables DNA-binding transcription factor activity and sequence-specific DNA binding activity. Acts upstream of or within several processes, including iridophore differentiation; negative regulation of macromolecule metabolic process; and nervous system development. Predicted to be located in nucleus. Is expressed in several structures, including mesoderm; nervous system; neural crest; neural keel; and neural plate. Human ortholog(s) of this gene implicated in vitiligo. Orthologous to human FOXD3 (forkhead box D3).

Ensembl:

ensembl_id ENSDARG00000021032

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00063994 True 1799 mRNA 0.48 1 32092032 32093830

Neighbor

gene id symbol gene type direction distance location
XLOC_032938 alg6 coding downstream 4921 32065094 ~ 32087111 (-)
XLOC_032937 efcab7 coding downstream 46049 32029231 ~ 32045983 (-)
XLOC_032936 pgm1 coding downstream 66807 32010183 ~ 32025225 (-)
XLOC_032934 ror1 coding downstream 104092 31772182 ~ 31987940 (-)
XLOC_032935 si:dkey-209n16.2 coding downstream 285687 31804665 ~ 31806345 (-)
XLOC_032940 NA coding upstream 101978 32195808 ~ 32196825 (-)
XLOC_032941 atg4c coding upstream 206188 32300018 ~ 32315494 (-)
XLOC_032942 angptl3 coding upstream 250367 32344197 ~ 32349153 (-)
XLOC_032943 usp1 coding upstream 300672 32394502 ~ 32411727 (-)
XLOC_032944 NA coding upstream 321246 32415076 ~ 32416753 (-)
XLOC_032933 NA non-coding downstream 342248 31745291 ~ 31749784 (-)
XLOC_032927 CR847887.1 non-coding downstream 944777 31069530 ~ 31147255 (-)
XLOC_032920 NA non-coding downstream 1633017 30452287 ~ 30459015 (-)
XLOC_032919 FP236850.1 non-coding downstream 1870062 30221834 ~ 30221970 (-)
XLOC_032918 FP236850.2 non-coding downstream 1888995 30202921 ~ 30203037 (-)
XLOC_032945 LO017955.2 non-coding upstream 480166 32573996 ~ 32592792 (-)
XLOC_032946 NA non-coding upstream 593172 32687002 ~ 32687386 (-)
XLOC_032952 NA non-coding upstream 1096752 33190582 ~ 33210388 (-)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000340_05196551_05197666 FOXD3 coding CI01000340 null 5196128 ~ 5198285 (-)