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    Mexis macrophage expressed LXRa(NR1H3)-dependent amplifier of Abca1 transcription lncRNA [ Mus musculus (house mouse) ]

    Gene ID: 381524, updated on 2-Nov-2024

    Summary

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    Official Symbol
    Mexisprovided by MGI
    Official Full Name
    macrophage expressed LXRa(NR1H3)-dependent amplifier of Abca1 transcription lncRNAprovided by MGI
    Primary source
    MGI:MGI:2140270
    See related
    Ensembl:ENSMUSG00000086712 AllianceGenome:MGI:2140270
    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
    Gm1659
    Summary
    Enables chromatin DNA binding activity. Involved in several processes, including cellular response to oxidised low-density lipoprotein particle stimulus; cholesterol efflux; and cholesterol homeostasis. Located in chromatin and nucleus. [provided by Alliance of Genome Resources, Nov 2024]
    Expression
    Biased expression in large intestine adult (RPKM 12.4), duodenum adult (RPKM 7.4) and 9 other tissues See more
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    Genomic context

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    See Mexis in Genome Data Viewer
    Location:
    4 B2; 4 28.6 cM
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 4 NC_000070.7 (53261356..53270232, complement)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 4 NC_000070.6 (53261356..53270232, complement)

    Chromosome 4 - NC_000070.7Genomic Context describing neighboring genes Neighboring gene RIKEN cDNA 4930522O17 gene Neighboring gene predicted gene, 57725 Neighboring gene STARR-positive B cell enhancer mm9_chr4:53290912-53291213 Neighboring gene STARR-seq mESC enhancer starr_10223 Neighboring gene STARR-seq mESC enhancer starr_10230 Neighboring gene predicted gene 12496 Neighboring gene STARR-positive B cell enhancer mm9_chr4:53397629-53397930 Neighboring gene STARR-seq mESC enhancer starr_10233 Neighboring gene STARR-positive B cell enhancer mm9_chr4:53424836-53425137 Neighboring gene solute carrier family 44, member 1 Neighboring gene predicted gene, 54227

    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. Transcriptional regulation of macrophage cholesterol efflux and atherogenesis by a long noncoding RNA. Sallam T, et al. Nat Med, 2018 Mar. PMID 29431742, Free PMC Article
    2. USP7 represses lineage differentiation genes in mouse embryonic stem cells by both catalytic and noncatalytic activities. Liu C, et al. Sci Adv, 2023 May 19. PMID 37196079, Free PMC Article
    3. The Vertebrate Genome Annotation browser 10 years on. Harrow JL, et al. Nucleic Acids Res, 2014 Jan. PMID 24316575, Free PMC Article
    4. Antisense transcription in the mammalian transcriptome. Katayama S, et al. Science, 2005 Sep 2. PMID 16141073
    5. High-efficiency full-length cDNA cloning. Carninci P, et al. Methods Enzymol, 1999. PMID 10349636

    See all (11) citations in PubMed

    GeneRIFs: Gene References Into Functions

    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

    Gene Ontology Provided by MGI

    Function Evidence Code Pubs
    enables chromatin DNA binding IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in artery development IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cellular homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cellular response to oxidised low-density lipoprotein particle stimulus IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cholesterol efflux IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in cholesterol efflux IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in cholesterol homeostasis IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in chromatin organization IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in establishment of localization in cell IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in establishment of localization in cell IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in gene expression IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    involved_in gene expression IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in chromatin IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    located_in nucleus 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_033139.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) and variant 2 have short open reading frames and do not look like to make any functional protein.
      Source sequence(s)
      AK144542
      Related
      ENSMUST00000123127.4

    2. NR_033140.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) has an alternate downstream 5' exon, as compared to variant 1.
      Source sequence(s)
      AK144542, BC086687

    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_000070.7 Reference GRCm39 C57BL/6J

      Range
      53261356..53270232 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001033454.2: Suppressed sequence

      Description
      NM_001033454.2: This RefSeq was permanently suppressed because it is now thought that this gene does not encode a protein.
    Nucleotide Protein Strain
    Heading Accession and Version

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