U.S. flag

An official website of the United States government

Links from GEO Profiles

    • Showing Current items.

    Irf6 interferon regulatory factor 6 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 364081, updated on 9-Dec-2024

    Summary

    Official Symbol
    Irf6provided by RGD
    Official Full Name
    interferon regulatory factor 6provided by RGD
    Primary source
    RGD:1309645
    See related
    EnsemblRapid:ENSRNOG00000005082 AllianceGenome:RGD:1309645
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Summary
    Predicted to enable DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including mammary gland epithelial cell differentiation; negative regulation of cell population proliferation; and positive regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including keratinocyte differentiation; negative regulation of cell population proliferation; and roof of mouth development. Predicted to be located in cytoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in several diseases, including Van der Woude syndrome; cleft lip; cleft palate; orofacial cleft 6; and popliteal pterygium syndrome. Orthologous to human IRF6 (interferon regulatory factor 6). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Liver (RPKM 199.9), Kidney (RPKM 144.4) and 8 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Irf6 in Genome Data Viewer
    Location:
    13q27
    Exon count:
    8
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 13 NC_086031.1 (107200876..107220083)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 13 NC_051348.1 (104672179..104691386)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 13 NC_005112.4 (111870121..111889328)

    Chromosome 13 - NC_086031.1Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC120096359 Neighboring gene UTP25 small subunit processome component Neighboring gene uncharacterized LOC120096360 Neighboring gene similar to human chromosome 1 open reading frame 74 Neighboring gene TRAF3 interacting protein 3 Neighboring gene small nucleolar RNA SNORA48

    Genomic regions, transcripts, and products

    Expression

    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Pathways from PubChem

    General gene information

    Gene Ontology Provided by RGD

    Process Evidence Code Pubs
    involved_in biological_process  
    acts_upstream_of_or_within cell development  
    acts_upstream_of cell population proliferation  
    acts_upstream_of_or_within cranial skeletal system development  
    involved_in immune system process  
    acts_upstream_of_or_within keratinocyte differentiation  
    acts_upstream_of keratinocyte proliferation  
    acts_upstream_of_or_within keratinocyte proliferation  
    acts_upstream_of_or_within limb development  
    involved_in mammary gland epithelial cell differentiation  
    involved_in negative regulation of cell population proliferation  
    acts_upstream_of_or_within negative regulation of keratinocyte proliferation  
    acts_upstream_of_or_within negative regulation of stem cell proliferation  
    involved_in positive regulation of DNA-templated transcription  
    involved_in positive regulation of transcription by RNA polymerase II  
    involved_in regulation of transcription by RNA polymerase II  
    acts_upstream_of_or_within roof of mouth development  
    acts_upstream_of_or_within skin development  
    acts_upstream_of stem cell proliferation  
    acts_upstream_of_or_within stem cell proliferation  
    Component Evidence Code Pubs
    located_in cytoplasm  
    is_active_in nucleus  

    General protein information

    Preferred Names
    interferon regulatory factor 6

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001108859.1NP_001102329.1  interferon regulatory factor 6

      See identical proteins and their annotated locations for NP_001102329.1

      Status: PROVISIONAL

      Source sequence(s)
      CH473985
      UniProtKB/TrEMBL
      A6JH20, D4AAV0
      Related
      ENSRNOP00000007333.3, ENSRNOT00000007333.6
      Conserved Domains (2) summary
      pfam00605
      Location:9114
      IRF; Interferon regulatory factor transcription factor
      pfam10401
      Location:224407
      IRF-3; Interferon-regulatory factor 3

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086031.1 Reference GRCr8

      Range
      107200876..107220083
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    External link. Please review our privacy policy.