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LINC00871 long intergenic non-protein coding RNA 871 [ Homo sapiens (human) ]

Gene ID: 100506412, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00871provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 871provided by HGNC
Primary source
HGNC:HGNC:47038
See related
Ensembl:ENSG00000258700 AllianceGenome:HGNC:47038
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
Low expression observed in reference dataset See more
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Genomic context

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Location:
14q21.2
Exon count:
8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (46064159..46501903)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (40256664..40700717)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (46533362..46971106)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370478 Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:46254136-46254804 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:46280279-46280908 Neighboring gene uncharacterized LOC105378177 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8307 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:46357483-46358111 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:46358112-46358739 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:46790472-46791404 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr14:46791405-46792337 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:46846591-46847091 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:46850488-46851388 Neighboring gene uncharacterized LOC124903309 Neighboring gene uncharacterized LOC105370480 Neighboring gene uncharacterized LOC105370481 Neighboring gene MPRA-validated peak2148 silencer Neighboring gene ribosomal protein L10 like

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. Creation of genome-wide protein expression libraries using random activation of gene expression. Harrington JJ, et al. Nat Biotechnol, 2001 May. PMID 11329013
  2. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

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_102699.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) lacks multiple 5' exons and contains two alternate 5' exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AL512414

  2. NR_102700.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) lacks multiple 5' exons and contains an alternate 5' exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AL512414

  3. NR_102701.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longest transcript.
    Source sequence(s)
    AL161664, AL355099, AL512414
    Related
    ENST00000556886.1

  4. NR_102702.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks two internal exons, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AL161664, AL512414
    Related
    ENST00000656720.1

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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    46064159..46501903
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_021160014.1 Reference GRCh38.p14 PATCHES

    Range
    124773..198857
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    40256664..40700717
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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