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    Ifi213 interferon activated gene 213 [ Mus musculus (house mouse) ]

    Gene ID: 623121, updated on 28-Oct-2024

    Summary

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    Official Symbol
    Ifi213provided by MGI
    Official Full Name
    interferon activated gene 213provided by MGI
    Primary source
    MGI:MGI:3695276
    See related
    Ensembl:ENSMUSG00000073491 AllianceGenome:MGI:3695276
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Pydc4; Pyr-A; E030037K03Rik; E430029J22Rik
    Summary
    Predicted to enable double-stranded DNA binding activity and identical protein binding activity. Predicted to be involved in several processes, including regulation of cysteine-type endopeptidase activity; regulation of gene expression; and regulation of innate immune response. Predicted to be located in nucleolus. Predicted to be active in cytosol and nucleoplasm. Orthologous to human IFI16 (interferon gamma inducible protein 16). [provided by Alliance of Genome Resources, Oct 2024]
    Expression
    Biased expression in thymus adult (RPKM 4.0), mammary gland adult (RPKM 3.5) and 9 other tissues See more
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    Genomic context

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    See Ifi213 in Genome Data Viewer
    Location:
    1 H3; 1 80.49 cM
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (173393849..173426868, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (173566280..173599348, complement)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene STARR-seq mESC enhancer starr_03079 Neighboring gene interferon activated gene 206 Neighboring gene STARR-seq mESC enhancer starr_03080 Neighboring gene STARR-positive B cell enhancer ABC_E10059 Neighboring gene STARR-positive B cell enhancer ABC_E4392 Neighboring gene interferon activated gene 214 Neighboring gene STARR-positive B cell enhancer ABC_E11699 Neighboring gene STARR-seq mESC enhancer starr_03081 Neighboring gene STARR-positive B cell enhancer ABC_E10060 Neighboring gene STARR-positive B cell enhancer ABC_E5857 Neighboring gene STARR-positive B cell enhancer ABC_E4393 Neighboring gene interferon activated gene 209 Neighboring gene STARR-positive B cell enhancer mm9_chr1:175599072-175599372 Neighboring gene STARR-seq mESC enhancer starr_03083 Neighboring gene interferon activated gene 208

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Mouse ENCODE transcriptome data Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

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    Related articles in PubMed

    1. The mammalian PYHIN gene family: phylogeny, evolution and expression. Cridland JA, et al. BMC Evol Biol, 2012 Aug 7. PMID 22871040, Free PMC Article
    2. Extensive evolutionary and functional diversity among mammalian AIM2-like receptors. Brunette RL, et al. J Exp Med, 2012 Oct 22. PMID 23045604, Free PMC Article
    3. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    4. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636
    5. RIKEN integrated sequence analysis (RISA) system--384-format sequencing pipeline with 384 multicapillary sequencer. Shibata K, et al. Genome Res, 2000 Nov. PMID 11076861, Free PMC Article

    See all (10) citations in PubMed

    GeneRIFs: Gene References Into Functions

    General gene information

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    Homology

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables double-stranded DNA binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables double-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables identical protein binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables transcription factor binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in activation of cysteine-type endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in activation of innate immune response IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in activation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to glucose starvation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in cellular response to interferon-beta IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in cellular response to ionizing radiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in defense response to virus ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in intrinsic apoptotic signaling pathway by p53 class mediator ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in monocyte differentiation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of AIM2 inflammasome complex assembly ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of DNA-templated transcription ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of cysteine-type endopeptidase activity ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of gene expression, epigenetic ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of innate immune response ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in negative regulation of viral genome replication ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of interleukin-1 beta production ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of transcription by RNA polymerase II ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    is_active_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in cytosol IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    colocalizes_with cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytosol ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    is_active_in nucleoplasm IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    interferon activated gene 213
    Names
    pyrin domain containing 4

    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)

    1. NM_001177349.2 → NP_001170820.1  interferon activated gene 213 isoform a

      See identical proteins and their annotated locations for NP_001170820.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1), as well as variant 2, encodes isoform a.
      Source sequence(s)
      AC117682
      Consensus CDS
      CCDS48450.1
      UniProtKB/TrEMBL
      Q3UPZ5
      Related
      ENSMUSP00000095070.3, ENSMUST00000097462.9
      Conserved Domains (1) summary
      cd08305
      Location:14 → 84
      Pyrin; Pyrin: a protein-protein interaction domain

    2. NM_001177350.2 → NP_001170821.1  interferon activated gene 213 isoform a

      See identical proteins and their annotated locations for NP_001170821.1

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2), as well as variant 1, encodes isoform a.
      Source sequence(s)
      AC117682
      Consensus CDS
      CCDS48450.1
      UniProtKB/TrEMBL
      Q3UPZ5
      Related
      ENSMUSP00000136238.2, ENSMUST00000180215.2
      Conserved Domains (1) summary
      cd08305
      Location:14 → 84
      Pyrin; Pyrin: a protein-protein interaction domain

    3. NM_001368798.1 → NP_001355727.1  interferon activated gene 213 isoform b

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) encodes the longest isoform (b).
      Source sequence(s)
      AC117682
      Conserved Domains (2) summary
      COG5422
      Location:156 → 449
      ROM1; RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
      cd08305
      Location:14 → 84
      Pyrin; a protein-protein interaction domain

    4. NM_001368799.1 → NP_001355728.1  interferon activated gene 213 isoform c

      Status: VALIDATED

      Source sequence(s)
      AC117682
      Conserved Domains (2) summary
      COG5422
      Location:156 → 449
      ROM1; RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
      cd08305
      Location:14 → 84
      Pyrin; a protein-protein interaction domain

    RNA

    1. NR_160907.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC117682

    2. NR_160908.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC117682

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      173393849..173426868 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_011238852.3 → XP_011237154.1  interferon activated gene 213 isoform X3

      UniProtKB/TrEMBL
      D3Z5G0
      Related
      ENSMUSP00000117222.2, ENSMUST00000150649.9
      Conserved Domains (2) summary
      COG5422
      Location:156 → 449
      ROM1; RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
      cd08305
      Location:14 → 84
      Pyrin; a protein-protein interaction domain

    2. XM_011238851.3 → XP_011237153.1  interferon activated gene 213 isoform X2

      Conserved Domains (2) summary
      COG5422
      Location:156 → 449
      ROM1; RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
      cd08305
      Location:14 → 84
      Pyrin; a protein-protein interaction domain

    3. XM_011238850.4 → XP_011237152.1  interferon activated gene 213 isoform X1

      Conserved Domains (3) summary
      COG5422
      Location:156 → 449
      ROM1; RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
      cd08305
      Location:14 → 84
      Pyrin; a protein-protein interaction domain
      pfam15695
      Location:505 → 569
      HERV-K_REC; Rec (regulator of expression encoded by corf) of HERV-K-113

    4. XM_036152616.1 → XP_036008509.1  interferon activated gene 213 isoform X5

      Conserved Domains (1) summary
      COG5422
      Location:16 → 309
      ROM1; RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]

    5. XM_030255718.2 → XP_030111578.1  interferon activated gene 213 isoform X4

      Conserved Domains (2) summary
      COG5422
      Location:156 → 449
      ROM1; RhoGEF, Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases [Signal transduction mechanisms]
      cd08305
      Location:14 → 84
      Pyrin; a protein-protein interaction domain

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001033384.1: Suppressed sequence

      Description
      NM_001033384.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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