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

Gene ID: 441242, updated on 10-Oct-2023

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
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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Location:
7q11.21
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (65647010..65770810, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (66869106..66992930, complement)
105.20220307 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: 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
  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)

Genotypes

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

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_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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