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MASCRNA MALAT1-associated small cytoplasmic RNA [ Homo sapiens (human) ]

Gene ID: 109136578, updated on 17-Sep-2024

Summary

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Gene symbol
MASCRNA
Gene description
MALAT1-associated small cytoplasmic RNA
See related
Ensembl:ENSG00000274072
Gene type
scRNA
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This locus represents a small RNA that is related to tRNA and is localized to the cytoplasm. This RNA is not thought to be transcribed independently; it is instead cleaved by RNase P and RNase Z from the MALAT1 (metastasis associated lung adenocarcinoma transcript 1) long non-coding RNA precursor transcript. [provided by RefSeq, Nov 2016]
Orthologs
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Genomic context

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See MASCRNA in Genome Data Viewer
Location:
11q13.1
Exon count:
1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (65506117..65506174)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (65499421..65499478)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (65273588..65273645)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene NEAT1-MALAT1 intergenic CAGE-defined high expression enhancer Neighboring gene CRISPRi-validated cis-regulatory element chr11.3247 Neighboring gene NEAT1-MALAT1 intergenic CAGE-defined low expression enhancer Neighboring gene enhancer lncRNA neighbor of NEAT1 and MALAT1 Neighboring gene VISTA enhancer hs1759 Neighboring gene long intergenic non-protein coding RNA 2736 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:65259133-65259634 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:65260440-65260950 Neighboring gene Sharpr-MPRA regulatory region 14387 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4977 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr11:65264508-65265707 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4982 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4981 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4983 Neighboring gene metastasis associated lung adenocarcinoma transcript 1 Neighboring gene TALAM1 transcript, MALAT1 antisense RNA Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4984 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:65274865-65275546 Neighboring gene small nuclear ribonucleoprotein polypeptide G pseudogene 19 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3529 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:65297753-65297921 Neighboring gene SCY1 like pseudokinase 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:65305475-65305979 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:65305980-65306483 Neighboring gene latent transforming growth factor beta binding protein 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Long noncoding RNA MALAT1-derived mascRNA is involved in cardiovascular innate immunity. Gast M, et al. J Mol Cell Biol, 2016 Apr. PMID 26823496, Free PMC Article
  2. Natural antisense RNA promotes 3' end processing and maturation of MALAT1 lncRNA. Zong X, et al. Nucleic Acids Res, 2016 Apr 7. PMID 26826711, Free PMC Article
  3. 3' end processing of a long nuclear-retained noncoding RNA yields a tRNA-like cytoplasmic RNA. Wilusz JE, et al. Cell, 2008 Nov 28. PMID 19041754, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

Genotypes

General gene information

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Homology

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_144569.1 RNA Sequence

    Status: REVIEWED

    Source sequence(s)
    FJ209302
    Related
    ENST00000611300.1

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    65506117..65506174
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    65499421..65499478
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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