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    MRPS30-DT MRPS30 divergent transcript [ Homo sapiens (human) ]

    Gene ID: 100506674, updated on 10-Dec-2024

    Summary

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    Official Symbol
    MRPS30-DTprovided by HGNC
    Official Full Name
    MRPS30 divergent transcriptprovided by HGNC
    Primary source
    HGNC:HGNC:53420
    See related
    Ensembl:ENSG00000251141 AllianceGenome:HGNC:53420
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    BRCAT54; BRCAT107; LINC02224
    Expression
    Broad expression in brain (RPKM 2.3), thyroid (RPKM 1.7) and 21 other tissues See more
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    Genomic context

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    See MRPS30-DT in Genome Data Viewer
    Location:
    5p12
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (44744328..44808793, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (44998037..45062499, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (44744430..44808895, complement)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2224 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:44641710-44642210 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:44664054-44664554 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:44664555-44665055 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:44669147-44669815 Neighboring gene RNA, 7SL, cytoplasmic 383, pseudogene Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:44808788-44809444 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:44809445-44810100 Neighboring gene mitochondrial ribosomal protein S30 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:44875560-44876759 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr5:44911606-44912309 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:44960236-44960452 Neighboring gene uncharacterized LOC124901180

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: Tissue-specific circular RNA induction during human fetal development
    • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
    • BioProject: PRJNA270632
    • Publication: PMID 26076956
    • Analysis date: Mon Apr 2 22:54:59 2018

    Bibliography

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    Related articles in PubMed

    1. Long non-coding RNA breast cancer-associated transcript 54 sponges microRNA-1269b to suppress the proliferation of hemangioma-derived endothelial cells. Lv Z, et al. Bioengineered, 2022 Mar. PMID 35200096, Free PMC Article
    2. In silico identification and in vitro evaluation of MRPS30-DT lncRNA and MRPS30 gene expression in breast cancer. Shirani N, et al. Cancer Rep (Hoboken), 2024 Jun. PMID 38886335, Free PMC Article
    3. LncRNA BRCAT54 is downregulated and inhibits cancer cell proliferation by downregulating miR-130b-3p through methylation in prostate cancer. Liang H, et al. J Biochem Mol Toxicol, 2024 Jan. PMID 37888834
    4. Long non-coding RNA BRCAT54 sponges microRNA-21 in vestibular schwannoma to suppress cell proliferation. Xiao G, et al. Bioengineered, 2022 Feb. PMID 35137654, Free PMC Article
    5. LncRNA BRCAT54 inhibits the tumorigenesis of non-small cell lung cancer by binding to RPS9 to transcriptionally regulate JAK-STAT and calcium pathway genes. Yang W, et al. Carcinogenesis, 2021 Feb 11. PMID 32459848

    See all (8) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. In silico identification and in vitro evaluation of MRPS30-DT lncRNA and MRPS30 gene expression in breast cancer.
      Title: In silico identification and in vitro evaluation of MRPS30-DT lncRNA and MRPS30 gene expression in breast cancer.
    2. LncRNA BRCAT54 is downregulated and inhibits cancer cell proliferation by downregulating miR-130b-3p through methylation in prostate cancer.
      Title: LncRNA BRCAT54 is downregulated and inhibits cancer cell proliferation by downregulating miR-130b-3p through methylation in prostate cancer.
    3. Long non-coding RNA breast cancer-associated transcript 54 sponges microRNA-1269b to suppress the proliferation of hemangioma-derived endothelial cells.
      Title: Long non-coding RNA breast cancer-associated transcript 54 sponges microRNA-1269b to suppress the proliferation of hemangioma-derived endothelial cells.
    4. Long non-coding RNA BRCAT54 sponges microRNA-21 in vestibular schwannoma to suppress cell proliferation.
      Title: Long non-coding RNA BRCAT54 sponges microRNA-21 in vestibular schwannoma to suppress cell proliferation.
    5. LncRNA BRCAT54 inhibits the tumorigenesis of non-small cell lung cancer by binding to RPS9 to transcriptionally regulate JAK-STAT and calcium pathway genes.
      Title: LncRNA BRCAT54 inhibits the tumorigenesis of non-small cell lung cancer by binding to RPS9 to transcriptionally regulate JAK-STAT and calcium pathway genes.
    Submit: New GeneRIF Correction

    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)

    See Variation Viewer (GRCh38)

    General gene information

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    Markers

    Other Names

    • breast cancer-associated transcript 107
    • breast cancer-associated transcript 54
    • long intergenic non-protein coding RNA 2224

    Clone Names

    • DKFZp313K2435

    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_109862.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AC093297, BG612611, BM679915, HY237908, HY316932
      Related
      ENST00000807637.1

    2. NR_109863.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site at the 3' terminal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC093297, BM679915, BY797234, HY237908, HY316932

    3. NR_109864.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate internal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC093297, BG612611, BM679915, HY123663, HY237908, HY316932
      Related
      ENST00000505302.2

    4. NR_109865.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) lacks an alternate internal exon and uses an alternate splice site at the 3' terminal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC093297, AL691871, BM679915, BY797234, HY237908, HY316932

    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_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      44744328..44808793 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      44998037..45062499 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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    Research Materials