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    Airn antisense Igf2r RNA [ Mus musculus (house mouse) ]

    Gene ID: 104103, updated on 21-Apr-2024

    Summary

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    Official Symbol
    Airnprovided by MGI
    Official Full Name
    antisense Igf2r RNAprovided by MGI
    Primary source
    MGI:MGI:1353471
    See related
    Ensembl:ENSMUSG00000078247 AllianceGenome:MGI:1353471
    Gene type
    ncRNA
    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
    Air; IGF2RAS; D17Ertd663e; 2810051F02Rik; 2810434M15Rik; B930018I07Rik
    Summary
    This gene is a paternally expressed imprinted gene. Alternatively spliced transcript variants have been produced from this gene and they are all long non-coding RNAs. These variants share the same 5' exon, and their 3' exons are divergent. The 5' exon overlaps the intron 2 of the Igf2r gene on the opposite strand. The Igf2r intron 2 contains a CpG island, which is a promoter and drives the expression of this gene. This gene is responsible for silencing Igf2r, and the flanking Slc22a2 and Slc22a3 genes in the imprinted gene cluster. It regulates transcription of these genes through epigenetic modifications. [provided by RefSeq, Jan 2013]
    Expression
    Broad expression in limb E14.5 (RPKM 7.3), bladder adult (RPKM 3.7) and 20 other tissues See more
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    Genomic context

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    Location:
    17 8.66 cM; 17 A1
    Exon count:
    6
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 17 NC_000083.7 (12960198..13078771)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 17 NC_000083.6 (12741311..12859884)

    Chromosome 17 - NC_000083.7Genomic Context describing neighboring genes Neighboring gene solute carrier family 22 (organic cation transporter), member 2 Neighboring gene STARR-seq mESC enhancer starr_41857 Neighboring gene solute carrier family 22 (organic cation transporter), member 1 Neighboring gene insulin-like growth factor 2 receptor Neighboring gene CapStarr-seq enhancer MGSCv37_chr17:12938713-12938996 Neighboring gene VISTA enhancer mm89 Neighboring gene predicted gene, 49958 Neighboring gene STARR-seq mESC enhancer starr_41859 Neighboring gene RAN GTPase activating protein 1 pseudogene Neighboring gene RAN GTPase activating protein 1 pseudogene Neighboring gene ribosomal protein L41 pseudogene Neighboring gene MAS1 oncogene Neighboring gene predicted gene, 53988 Neighboring gene MAS-related GPR, member H

    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
    • 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. LncRNA-Airn alleviates acute liver injury by inhibiting hepatocyte apoptosis via the NF-κB signaling pathway. Shao S, et al. Acta Biochim Biophys Sin (Shanghai), 2022 Nov 25. PMID 36604144, Free PMC Article
    2. An RNA-Seq strategy to detect the complete coding and non-coding transcriptome including full-length imprinted macro ncRNAs. Huang R, et al. PLoS One, 2011. PMID 22102886, Free PMC Article
    3. The regulation of non-coding RNA expression in the liver of mice fed DDC. Oliva J, et al. Exp Mol Pathol, 2009 Aug. PMID 19362547, Free PMC Article
    4. The imprinted Air ncRNA is an atypical RNAPII transcript that evades splicing and escapes nuclear export. Seidl CI, et al. EMBO J, 2006 Aug 9. PMID 16874305, Free PMC Article
    5. Imprinting in neurons. Kishino T. Cytogenet Genome Res, 2006. PMID 16575182

    See all (56) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Proximity-dependent recruitment of Polycomb repressive complexes by the lncRNA Airn.
      Title: Proximity-dependent recruitment of Polycomb repressive complexes by the lncRNA Airn.
    2. LncRNA-Airn alleviates acute liver injury by inhibiting hepatocyte apoptosis via the NF-kappaB signaling pathway.
      Title: LncRNA-Airn alleviates acute liver injury by inhibiting hepatocyte apoptosis via the NF-κB signaling pathway.
    3. LncRNA Airn alleviates diabetic cardiac fibrosis by inhibiting activation of cardiac fibroblasts via a m6A-IMP2-p53 axis.
      Title: LncRNA Airn alleviates diabetic cardiac fibrosis by inhibiting activation of cardiac fibroblasts via a m6A-IMP2-p53 axis.
    4. LncRNA Airn maintains LSEC differentiation to alleviate liver fibrosis via the KLF2-eNOS-sGC pathway.
      Title: LncRNA Airn maintains LSEC differentiation to alleviate liver fibrosis via the KLF2-eNOS-sGC pathway.
    5. Downregulation of long non-coding RNA AIRN promotes mitophagy in alcoholic fatty hepatocytes by promoting ubiquitination of mTOR.
      Title: Downregulation of long non-coding RNA AIRN promotes mitophagy in alcoholic fatty hepatocytes by promoting ubiquitination of mTOR.
    6. Long noncoding RNA Airn protects podocytes from diabetic nephropathy lesions via binding to Igf2bp2 and facilitating translation of Igf2 and Lamb2.
      Title: Long noncoding RNA Airn protects podocytes from diabetic nephropathy lesions via binding to Igf2bp2 and facilitating translation of Igf2 and Lamb2.
    7. Chromatin environments surrounding Xist, Airn, and Kcnq1ot1 suggest common mechanisms of PRC engagement and spreading. Our data indicate that lncRNA potency can be tightly linked to lncRNA abundance and that within lncRNA-targeted domains, PRCs are recruited to CGIs via lncRNA-independent mechanisms.
      Title: lncRNA-Induced Spread of Polycomb Controlled by Genome Architecture, RNA Abundance, and CpG Island DNA.
    8. Study showed that chromosome interactions between the Airn gene body and the Slc22a3 promoter are enriched on the maternal allele because Airn expression represses these interactions on the paternal allele. These interactions are not required to upregulate Slc22a3 expression on the maternal allele, indicating that they are not essential promoter- enhancer interactions; they may serve to place both loci in close promixity.
      Title: The Airn lncRNA does not require any DNA elements within its locus to silence distant imprinted genes.
    9. In cardiomyocytes, silencing of Airn via siRNAs augmented cell death, vulnerability to cellular stress, and reduced cell migration. It also caused less binding of Igf2bp2 to other mRNAs and reduced translation of Igf2bp2 protein. Airn's binding partners were Igf2bp2 and Rpa1.
      Title: Airn Regulates Igf2bp2 Translation in Cardiomyocytes.
    10. Airn expression is both necessary and sufficient to silence Igf2r throughout embryonic stem cell differentiation.
      Title: Imprinted Igf2r silencing depends on continuous Airn lncRNA expression and is not restricted to a developmental window.
    Submit: New GeneRIF Correction See all GeneRIFs (18)

    Variation

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    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

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    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

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    Markers

    Other Names

    • antisense Igf2r RNA noncoding

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
    		  
    Process Evidence Code Pubs
    acts_upstream_of_or_within autosome genomic imprinting IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of_or_within protein localization to chromatin IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    acts_upstream_of regulatory ncRNA-mediated heterochromatin formation IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in nuclear chromosome IDA
    Inferred from Direct Assay
    more info
    		 PubMed 

    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.

    RNA

    1. NR_002853.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1), also known as SV1, represents the shortest transcript.
      Source sequence(s)
      AC116804, AK012942, CT030636

    2. NR_027772.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2), also known as SV2, contains an alternate 3' exon compared to variant 1.
      Source sequence(s)
      AC116804, BF729958

    3. NR_027773.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3), also known as SV3, contains two alternate 3' exons compared to variant 1.
      Source sequence(s)
      BY718621

    4. NR_027784.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4), also known as SV1a, contains two alternate 3' exons compared to variant 1.
      Source sequence(s)
      AC116804, BI872620, CT030636
      Related
      ENSMUST00000159791.3

    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_000083.7 Reference GRCm39 C57BL/6J

      Range
      12960198..13078771
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein Strain
    Heading Accession and Version

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