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    LINC03002 long intergenic non-protein coding RNA 3002 [ Homo sapiens (human) ]

    Gene ID: 101928304, updated on 28-Oct-2024

    Summary

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    Official Symbol
    LINC03002provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 3002provided by HGNC
    Primary source
    HGNC:HGNC:56123
    See related
    Ensembl:ENSG00000232310 AllianceGenome:HGNC:56123
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Biased expression in heart (RPKM 6.4), spleen (RPKM 1.0) and 5 other tissues See more
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    Genomic context

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    See LINC03002 in Genome Data Viewer
    Location:
    6q23.2
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (134525318..134540005, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (135713555..135728233, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (134846456..134861143, complement)

    Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 2 pseudogene 4 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:134757040-134758239 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25090 Neighboring gene long intergenic non-protein coding RNA 1010 Neighboring gene cancer/testis associated transcript 69 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:134808766-134808977 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:134855294-134856493 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:134858047-134859246 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr6:134905935-134906540 Neighboring gene family with sequence similarity 8 member A6, pseudogene Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr6:134982153-134982990 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90067 Neighboring gene uncharacterized LOC101928277 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr6:135027094-135027688 Neighboring gene NANOG hESC enhancer GRCh37_chr6:135171948-135172481 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25091 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25092 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25093 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25094 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25095

    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 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. Diversification of transcriptional modulation: large-scale identification and characterization of putative alternative promoters of human genes. Kimura K, et al. Genome Res, 2006 Jan. PMID 16344560, 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)

    See Variation Viewer (GRCh38)

    Genotypes

    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_125855.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AL078590, AV705921, CA430304, DA256978

    2. NR_125856.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate internal exon, resulting in a shorter transcript than variant 1.
      Source sequence(s)
      AL078590, AV705921, CA430304
      Related
      ENST00000668030.1

    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_000006.12 Reference GRCh38.p14 Primary Assembly

      Range
      134525318..134540005 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060930.1 Alternate T2T-CHM13v2.0

      Range
      135713555..135728233 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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