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

Gene ID: 381524, updated on 26-Sep-2022

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
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; 4 B2
Exon count:
3
Annotation release Status Assembly Chr Location
109 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 small nucleolar RNA SNORA48 Neighboring gene RIKEN cDNA 4930522O17 gene Neighboring gene predicted gene 12496 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. The Vertebrate Genome Annotation browser 10 years on. Harrow JL, et al. Nucleic Acids Res, 2014 Jan. PMID 24316575, 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

Variation

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Alleles

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

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
    ENSMUST00000123127.3

  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: Mus musculus Annotation Release 109 details...Open this link in a new tab

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

Gene LinkOut

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