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    LINC00261 long intergenic non-protein coding RNA 261 [ Homo sapiens (human) ]

    Gene ID: 140828, updated on 17-Sep-2024

    Summary

    Official Symbol
    LINC00261provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 261provided by HGNC
    Primary source
    HGNC:HGNC:16189
    See related
    Ensembl:ENSG00000259974 MIM:618518; AllianceGenome:HGNC:16189
    Gene type
    ncRNA
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    ALIEN; DEANR1; FALCOR; HCCDR1; LCAL62; C20orf56; NCRNA00261; TCONS_00027846; onco-lncRNA-17
    Summary
    This gene produces a long non-coding RNA that acts as a negative regulator of cell growth. This transcript may promote differentiation and apoptosis. [provided by RefSeq, Dec 2017]
    Expression
    Biased expression in liver (RPKM 46.4), stomach (RPKM 29.7) and 6 other tissues See more
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    Genomic context

    See LINC00261 in Genome Data Viewer
    Location:
    20p11.21
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (22560553..22578642, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (22619925..22638011, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (22541191..22559280, complement)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105372563 Neighboring gene uncharacterized LOC105372564 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22493383-22493884 Neighboring gene Sharpr-MPRA regulatory region 10094 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr20:22543873-22544400 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr20:22544401-22544926 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22548490-22549308 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22549309-22550126 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr20:22552037-22552636 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22558127-22559082 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr20:22559083-22560038 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr20:22560039-22560994 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22562671-22563242 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:22563243-22563815 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22565240-22565995 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22566751-22567506 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:22567507-22568261 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr20:22571115-22571710 Neighboring gene forkhead box A2 Neighboring gene lncRNA neighboring enhancer of FOXA2

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    A genome-wide approach accounting for body mass index identifies genetic variants influencing fasting glycemic traits and insulin resistance.
    EBI GWAS Catalog

    General gene information

    Markers

    Other Names

    • Foxa2-adjacent long noncoding RNA
    • definitive endoderm-associated long non-coding RNA 1
    • hepatocellular carcinoma down-regulated RNA 1

    Clone Names

    • bA216C10.1, dJ788L20.2

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_001558.3 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AL121722, AV648632, BG655894
      Related
      ENST00000564492.1

    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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      22560553..22578642 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      22619925..22638011 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)