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    LINC01312 long intergenic non-protein coding RNA 1312 [ Homo sapiens (human) ]

    Gene ID: 154089, updated on 10-Oct-2023

    Summary

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    Official Symbol
    LINC01312provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 1312provided by HGNC
    Primary source
    HGNC:HGNC:28525
    See related
    AllianceGenome:HGNC:28525
    Gene type
    ncRNA
    RefSeq status
    PREDICTED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC01312 in Genome Data Viewer
    Location:
    6q23.2
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (133821147..133853992)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (135010009..135042733)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (134142285..134175130)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene TCF21 antisense RNA inducing promoter demethylation Neighboring gene GATA motif-containing MPRA enhancer 179 Neighboring gene MPRA-validated peak6128 silencer Neighboring gene ferritin heavy chain 1 pseudogene 26 Neighboring gene uncharacterized LOC124901402 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17554 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr6:134175312-134176050 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr6:134209799-134210712 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:134211964-134212728 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr6:134213614-134214222 Neighboring gene transcription factor 21 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17555 Neighboring gene umcharacterized LOC128092253 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90026 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90028 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25081 Neighboring gene TATA-box binding protein like 1

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

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    Related articles in PubMed

    1. Common variants near MBNL1 and NKX2-5 are associated with infantile hypertrophic pyloric stenosis. Feenstra B, et al. Nat Genet, 2012 Feb 5. PMID 22306654, Free PMC Article
    2. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, Free PMC Article

    GeneRIFs: Gene References Into Functions

    Phenotypes

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    Review eQTL and phenotype association data in this region using PheGenI

    EBI GWAS Catalog

    Description
    Common variants near MBNL1 and NKX2-5 are associated with infantile hypertrophic pyloric stenosis.
    EBI GWAS Catalog

    Variation

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    See variants in ClinVar

    See studies and variants in dbVar

    See Variation Viewer (GRCh37.p13)

    See Variation Viewer (GRCh38)

    Genotypes

    General gene information

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    Markers

    Clone Names

    • MGC34034

    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_027030.1 RNA Sequence

      Status: PREDICTED

      Source sequence(s)
      AL137011

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      133821147..133853992
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      135010009..135042733
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_153224.2: Suppressed sequence

      Description
      NM_153224.2: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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