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LINC01549 long intergenic non-protein coding RNA 1549 [ Homo sapiens (human) ]

Gene ID: 100505929, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01549provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1549provided by HGNC
Primary source
HGNC:HGNC:1277
See related
AllianceGenome:HGNC:1277
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
C21orf37
Expression
Low expression observed in reference dataset See more
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Genomic context

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Location:
21q21.1
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (17438890..17449185)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (15793985..15804295)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (18811208..18821503)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985511 Neighboring gene NIMA-related kinase 4 pseudogene 1 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr21:18652025-18652526 Neighboring gene MPRA-validated peak4348 silencer Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr21:18743116-18744315 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr21:18790767-18791966 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr21:18810837-18811420 Neighboring gene RNA, U6 small nuclear 113, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18293 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13220 Neighboring gene tRNA-Gly (anticodon GCC) 1-5 Neighboring gene Sharpr-MPRA regulatory region 2602 Neighboring gene ribosomal protein L39 pseudogene 40

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. The DNA sequence of human chromosome 21. Hattori M, et al. Nature, 2000 May 18. PMID 10830953
  2. The sequence of the human genome. Venter JC, et al. Science, 2001 Feb 16. PMID 11181995
  3. TNF-α inhibits glucocorticoid receptor-induced gene expression by reshaping the GR nuclear cofactor profile. Dendoncker K, et al. Proc Natl Acad Sci U S A, 2019 Jun 25. PMID 31182584, Free PMC Article
  4. 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 Variation Viewer (GRCh37.p13)

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

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_037585.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AI420675, AP000952, BC130500, BX089409

  2. NR_037586.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate splice site resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AI420675, AP000952, BC144391, BX089409

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_000021.9 Reference GRCh38.p14 Primary Assembly

    Range
    17438890..17449185
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    15793985..15804295
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001005521.1: Suppressed sequence

    Description
    NM_001005521.1: This RefSeq was permanently suppressed because it was mostly repetitive sequence.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
A6NIU2.1 GenPept UniProtKB/Swiss-Prot:A6NIU2

Gene LinkOut

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