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

Summary

Official Symbol: Irf6provided by RGD
Official Full Name: interferon regulatory factor 6provided by RGD
Primary source: RGD:1309645
See related: Ensembl: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 immune system process; positive regulation of transcription by RNA polymerase II; and regulation of cell cycle. Predicted to act upstream of or within several processes, including epithelial cell differentiation; keratinocyte proliferation; and roof of mouth development. Predicted to be located in cell junction; cytosol; and nucleoplasm. Predicted to be active in nucleus. 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). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Liver (RPKM 199.9), Kidney (RPKM 144.4) and 8 other tissues See more
Orthologs: human mouse all
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Genomic context

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_086031.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

IRF6 might promote neuronal apoptosis by inhibiting Akt phosphorylation after Traumatic Brain Injury.
Title: Upregulation of Interferon Regulatory Factor 6 Promotes Neuronal Apoptosis After Traumatic Brain Injury in Adult Rats.

Submit: New GeneRIF Correction

General gene information

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Markers

RH129787 (e-PCR)
- UniSTS:213079

D1S3693 (e-PCR)
- UniSTS:474271

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables DNA binding	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription activator activity, RNA polymerase II-specific	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity	ISO Inferred from Sequence Orthology more info
enables DNA-binding transcription factor activity, RNA polymerase II-specific	IBA Inferred from Biological aspect of Ancestor more info
enables RNA polymerase II cis-regulatory region sequence-specific DNA binding	IBA Inferred from Biological aspect of Ancestor more info
enables sequence-specific DNA binding	ISO Inferred from Sequence Orthology more info
enables sequence-specific double-stranded DNA binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within cell development	ISO Inferred from Sequence Orthology more info
acts_upstream_of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cranial skeletal system development	ISO Inferred from Sequence Orthology more info
involved_in immune system process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within keratinocyte differentiation	ISO Inferred from Sequence Orthology more info
acts_upstream_of keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within limb development	ISO Inferred from Sequence Orthology more info
involved_in mammary gland epithelial cell differentiation	ISO Inferred from Sequence Orthology more info
involved_in negative regulation of cell population proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of keratinocyte proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of stem cell proliferation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in regulation of transcription by RNA polymerase II	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within roof of mouth development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within skin development	ISO Inferred from Sequence Orthology more info
acts_upstream_of stem cell proliferation	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within stem cell proliferation	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: interferon regulatory factor 6

NCBI Reference Sequences (RefSeq)

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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)

NM_001108859.1 → NP_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, ENSRNOT00000007333.5

Conserved Domains (2) summary

pfam00605
Location:9 → 114

IRF; Interferon regulatory factor transcription factor

pfam10401
Location:224 → 407

IRF-3; Interferon-regulatory factor 3