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    LINC03006 long intergenic non-protein coding RNA 3006 [ Homo sapiens (human) ]

    Gene ID: 441242, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC03006provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 3006provided by HGNC
    Primary source
    HGNC:HGNC:56131
    See related
    Ensembl:ENSG00000290926 AllianceGenome:HGNC:56131
    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
    Ubiquitous expression in testis (RPKM 1.4), prostate (RPKM 1.3) and 25 other tissues See more
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    Genomic context

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    See LINC03006 in Genome Data Viewer
    Location:
    7q11.21
    Exon count:
    11
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (65647010..65770810, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (66869106..66992930, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (65111924..65235797, complement)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene integrator complex subunit 4 pseudogene Neighboring gene uncharacterized LOC124901800 Neighboring gene glutamate metabotropic receptor 8 pseudogene Neighboring gene NANOG hESC enhancer GRCh37_chr7:65103805-65104363 Neighboring gene integrator complex subunit 4 pseudogene 2 Neighboring gene Sharpr-MPRA regulatory region 6763 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26072 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18199 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26074 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26073 Neighboring gene small nucleolar RNA, H/ACA box 15B-2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:65234206-65234829 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:65234830-65235452 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 26075 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:65240377-65240878 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:65240879-65241378 Neighboring gene chaperonin containing TCP1 subunit 6 pseudogene 1 Neighboring gene small nucleolar RNA, H/ACA box 22 Neighboring gene general transcription factor IIi pseudogene 5 Neighboring gene RNA, U6 small nuclear 912, pseudogene

    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. 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
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    3. 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

    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

    Clone Names

    • MGC87648

    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_038378.4 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AC073107, BC066990
      Related
      ENST00000633579.1

    2. NR_103527.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks several exons and contains alternate 5' and 3' terminal exons, compared to variant 1.
      Source sequence(s)
      AA745086, AC073107, AI935622, BX461661, BX647963, CN483231, DB316860
      Related
      ENST00000779181.1

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      65647010..65770810 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      66869106..66992930 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001013464.1: Suppressed sequence

      Description
      NM_001013464.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    Nucleotide Protein
    Heading Accession and Version

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