XLOC_019936 (irf6)


Basic Information

Item Value
gene id XLOC_019936
gene name irf6
gene type coding
species zebrafish (Danio rerio)
category of species model fish

Chromosome Information

Item Value
chromosome id NC_007133.7
NCBI id CM002906.2
chromosome length 39133080
location 1170294 ~ 1182165 (+)
genome version GRCz11_2017_zebrafish_Genome

Sequence

>TCONS_00039772
GATTCAGAGAAATGCCCGTGACGTCATCGCTGTACCTGAGTTTCGGCAGAGGGTGAAACTCTCGAGCAGAGATTCAGACACACATGAAACTCAGTTTCACACACTTTCACACGGACACACGGATATTCTGCGAGTCGTATCTCTCACCTGTGACTGACATACACAGACATTAAACACGTTTATTCATAAAAACCGTTCGTTTTGGCGGCAAAGGCCTCAGGATTGTGCTCCTCCTCCTGCTCTTCCTCCTCCCCCTGCTCTTCCCCCTCCGGCCGCCACCGTTCTTCCGGCCGCCGCCGCTCCTCCTGCTAATGTTTGGCCCAAGAAGGAGCCGGAGGACGTGGAGATGCAGCCGCCCCCCATGGAGATACAGACGCCCACCGCTCTCGACAACCTGTTCATCACGCCGGAGACCTGGATCAGCTCTCTGCCCATGACGGATCTGGAGGTGCAGTTCTACTACCGCGGTAAAGAGGTGTGTCCCCCATTGACGGTCAGTAACCCGCAGGGCTGTCGTCTGTTTTACGGGGACCTGGGCCCCATAGTGAACCAAGAGGAGCTGTTCGGCCCCGTGAGCCTGGAGCAGGTGCGCTTCCCGCCCACAGAGCACATCGCTAACGATAAGCAGCGCGTGTTCACTAGCCGGCTGCTGGACGTGATGGACCGCGGGCTCATCCTGGAGGTCAGCGGGCACGACATCTACGCCGTGCGCCTCTGCCAGTGTAAGGTGTACTGGTCCGGTCCCTGCGCCCCCAACCCAAACGCTCCCAACCTGATCGAGCGCCAGCAAAAGGTCAAGCTCTTCTGCCTCGAGTCCTTTCTCAGCGGTGA
>TCONS_00039773
ATTCAGAGAAATGCCCGTGACGTCATCGCTGTACCTGAGTTTCGGCAGAGGGTGAAACTCTCGAGCAGAGATTCAGACACACATGAAACTCAGTTTCACACACTTTCACACGGACACACGGATATTCTGCGAGTCGTATCTCTCACCTGTGACTGACATACACAGACATTAAACACGTTTATTCATAAAAACCGTTCGTTTTGGCGGCAAAGGCCTCAGGAGTGCTGCCTTTTCCTGCTTTGACGCGAGCGCTTCCTGAAACCCTCAGCCGGTGTGATGTCGTCTCATCCACGGCGTGTGCGTCTGAAGCCCTGGCTGGTCTCTCAGGTGGACAACGCTACGTTTCCTGGGCTGGTCTGGCTGGATAGAGACGCCAAACGCTTCCAGATCCCCTGGAAACACGCAACACGACACACACCGCAGCAGGAGGAGGAGAACACCATCTTTAAGgCCTGGGCAGTGGAGACGGGGAAGTATCAGGAAGGAGTGGATGAACCGGATCCAGCTAAATGGAAAGCGCAGCTCAGATGTGCTTTAAACAAGAGTCGCGAGTTCAACCTCATCTACGACGGCACGAAAGAGGTTCCCATGAACCCGCTGAAGATCTATGATGTGTGTGACATCCCACAGACGCCCAGCAACCCTgGTTCAGTTCCCACATACGAGACGGATGGAGATGAAGACGACATCCCAGACACTCCTGAACCTCCTCCACCATATGCATCACATGGCATGAGTGCGTCTCCTCTGGCTGCGGTCTGGACTCCTCCAGGCTCCGTGTCTCCTCTTCAGCCGTCCAGTTGTGCTCCTCCTCCTGCTCTTCCTCCTCCCCCTGCTCTTCCCCCTCCGGCCGCCACCGTTCTTCCGGCCGCCGCCGCTCCTCCTGCTAATGTTTGGCCCAAGAAGGAGCCGGAGGACGTGGAGATGCAGCCGCCCCCCATGGAGATACAGACGCCCACCGCTCTCGACAACCTGTTCATCACGCCGGAGACCTGGATCAGCTCTCTGCCCATGACGGATCTGGAGGTGCAGTTCTACTACCGCGGTAAAGAGGTGTGTCCCCCATTGACGGTCAGTAACCCGCAGGGCTGTCGTCTGTTTTACGGGGACCTGGGCCCCATAGTGAACCAAGAGGAGCTGTTCGGCCCCGTGAGCCTGGAGCAGGTGCGCTTCCCGCCCACAGAGCACATCGCTAACGATAAGCAGCGCGTGTTCACTAGCCGGCTGCTGGACGTGATGGACCGCGGGCTCATCCTGGAGGTCAGCGGGCACGACATCTACGCCGTGCGCCTCTGCCAGTGTAAGGTGTACTGGTCCGGTCCCTGCGCCCCCAACCCAAACGCTCCCAACCTGATCGAGCGCCAGCAAAAGGTCAAGCTCTTCTGCCTCGAGTCCTTTCTCAGCGgggTGATCACTCATCAGCGTGGTCAGTCTTCTGATGCTCCTCTTTATGATATTCACTTGTGTTTTGGAGAGGAGTGGCCCGACGGTCGACCCCGAGAGCGCAAACTCATCATGGTGCAGGTGGTTCCAGTAGTGGCTCGTATGATCAGCGAGATGTTCTCCGGCGACTGCACACGTTCCTTCGACAGCGGCAGTGTGCGTCTGCAGATCTCCATCCCGGATATTAAAGACAACATCGTGACGCACCTGAAGCAGCTGTACCGGCTCCTGCAGACGCACCAGGGGCCCGAGAACTGGCCGCTGCCACCCGGGGCCGCCCTGCAGCTCTCCTCCGCCCTGCACACGCAGTAACGCTCATCACACACACGCTTTTATACacacttctgtgtgtgtgtgtgtttagtagaGTGTCGGTTTATGTTTGAgtaagtgtgtgttttgtgtatgcgtttgtgtgtgtgtgtgtgtgtttgtatgtttgtttatgtgtgttggtttttgtctgtgtatgtgtgtgtgttgtgtatgcaTTTGTGTAAGTTCGTGTTtgtaaatttgtgtgtgtgtgttttgtgtgtgtaagtttgtgggtgtgttttgtttgtgtgtgtttgtgtgtgttggtttttgtctgtttatgtgtgcatgtgtgtgttttgtgtatgcATTTGTGTAAGTTtgtaaatttgtgtgtgtgtgtgtgtgtgtgtgtgtgtatgtaagtttgattatgtgtgtgtgtttggtttttgtctgtttgttttgtgtgtgtgtatgtgtgtgtgtgtgtttatgtgtctgcttgagtgtgtatgtttgtgtgtgtgtgtctgcttgatttttggtttgtgtgtatgtttgtgtgtgcgtgcgtgtgtgtgtctgttttgtttttgtctgtgtgtgcgtgttttgtgAATGATTTGtgcttgtgtatatgtgtgtctctgtgtttgtgtctgagtTCATTTGAgtgttggtttgtgtgtgtgtgtgtgtgttttgtatgcgtttgcttgcttgtgtgtgtgcgtgtgtgtgtatatactgtatgtgtgtgttttgtgcatgcattactttgtgtgtgtgtgtgtgtctatttgaGTTGTGTGTGTTACTTTTATACACGCTTTTGTGTTTTTACTGCAGACGTATGTTACGCCATTATTATCCTCCGCCACTTCTGTTTATTCTCCTGCTTCCGCTGTGAAGATCTCGTCGTTCGTTtgtgtttgtctttattttatagcGTGTTCCTGTGTTTGATGTGCTAGTGTGTAGATTTGTCCCGTAATGTATGgatttataaatacaaataaaaaaaaagaaaaacaagatgaaa

Function

symbol description
irf6 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in epidermis development. Acts upstream of or within embryonic neurocranium morphogenesis and epithelium development. Predicted to be active in nucleus. Is expressed in several structures, including blastoderm; digestive system; forerunner cell group; head; and sensory system. Human ortholog(s) of this gene implicated in several diseases, including Van der Woude syndrome; cleft lip; orofacial cleft 6; popliteal pterygium syndrome; and syndactyly. Orthologous to human IRF6 (interferon regulatory factor 6).

GO:

id name namespace
GO:0006355 regulation of transcription, DNA-templated biological_process
GO:0060429 epithelium development biological_process
GO:0002376 immune system process biological_process
GO:0048702 embryonic neurocranium morphogenesis biological_process
GO:0005634 nucleus cellular_component
GO:0003700 DNA-binding transcription factor activity molecular_function
GO:0000981 DNA-binding transcription factor activity, RNA polymerase II-specific molecular_function

KEGG:

id description
ko03000 Transcription factors
ko04147 Exosome

ZFIN:

id description
ZDB-GENE-040426-1137 Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in epidermis development. Acts upstream of or within embryonic neurocranium morphogenesis and epithelium development. Predicted to be active in nucleus. Is expressed in several structures, including blastoderm; digestive system; forerunner cell group; head; and sensory system. Human ortholog(s) of this gene implicated in several diseases, including Van der Woude syndrome; cleft lip; orofacial cleft 6; popliteal pterygium syndrome; and syndactyly. Orthologous to human IRF6 (interferon regulatory factor 6).

Ensembl:

ensembl_id ENSDARG00000101986

RNA

RNA id representative length rna type GC content exon number start site end site
TCONS_00039772 False 831 mRNA 0.58 3 1170294 1177638
TCONS_00039773 True 2746 mRNA 0.51 8 1170295 1182165

Neighbor

gene id symbol gene type direction distance location
XLOC_019935 GUCA1A coding upstream 23305 1137997 ~ 1146989 (+)
XLOC_019934 si:ch1073-181h11.2 coding upstream 40031 1123110 ~ 1130263 (+)
XLOC_019933 si:ch1073-181h11.1 coding upstream 49419 1110855 ~ 1120875 (+)
XLOC_019932 guca1e coding upstream 60747 1092479 ~ 1109547 (+)
XLOC_019931 camk1ga coding upstream 100887 1049367 ~ 1069407 (+)
XLOC_019937 eps8l3a coding downstream 4701 1186866 ~ 1203405 (+)
XLOC_019938 CU570769.1 coding downstream 67623 1249788 ~ 1267820 (+)
XLOC_019939 si:ch73-138e16.2 coding downstream 94515 1276680 ~ 1282346 (+)
XLOC_019940 si:ch73-138e16.3 coding downstream 103017 1285182 ~ 1290139 (+)
XLOC_019941 si:ch73-138e16.4 coding downstream 109486 1291651 ~ 1294899 (+)
XLOC_019927 NA non-coding upstream 231467 923511 ~ 938827 (+)
XLOC_019924 NA non-coding upstream 352667 811600 ~ 817627 (+)
XLOC_019910 NA non-coding upstream 861090 240168 ~ 309204 (+)
XLOC_019909 NA non-coding upstream 883105 219167 ~ 287189 (+)
XLOC_019903 NA non-coding upstream 1113554 53914 ~ 56740 (+)
XLOC_019944 NA non-coding downstream 134587 1316752 ~ 1364861 (+)
XLOC_019947 BX322657.1 non-coding downstream 195166 1377331 ~ 1384069 (+)
XLOC_019963 AL954741.1 non-coding downstream 394698 1576863 ~ 1577746 (+)
XLOC_019970 BX649416.2 non-coding downstream 467963 1650128 ~ 1653938 (+)

Expression


Co-expression Network

Homologous

species gene id symbol gene type chromosome NCBI id location
grasscarp (Ctenopharyngodon idella) CI01000185_00015550_00020227 IRF6 coding CI01000185 null 15126 ~ 20227 (-)
eurasian perch (Perca fluviatilis) G190662 NA non-coding NC_053130.1 CM020927.1 1506179 ~ 1563100 (+)
bowfin (Amia calva) AMCG00013857 LOC107698281 coding CM030125.1 CM030125.1 45639830 ~ 45647135 (-)