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LINC01749 long intergenic non-protein coding RNA 1749 [ Homo sapiens (human) ]

Gene ID: 63930, updated on 21-Dec-2023

Summary

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Official Symbol
LINC01749provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1749provided by HGNC
Primary source
HGNC:HGNC:52537
See related
Ensembl:ENSG00000272259 AllianceGenome:HGNC:52537
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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See LINC01749 in Genome Data Viewer
Location:
20q13.33
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (63009383..63085071)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (64809723..64887929)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (61640735..61716423)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61583471-61584300 Neighboring gene solute carrier family 17 member 9 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13141 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13140 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61604715-61605564 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr20:61605565-61606416 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18220 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61613574-61614491 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61629479-61630243 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61630758-61631400 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61631401-61632042 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61635197-61635710 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61638035-61638740 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61638741-61639448 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18221 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13142 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13143 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18222 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18223 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61648125-61649092 Neighboring gene basic helix-loop-helix family member e23 Neighboring gene uncharacterized LOC105372718 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13144 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61659968-61660519 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61663990-61664714 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61665438-61666162 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61666163-61666886 Neighboring gene long intergenic non-protein coding RNA 29 Neighboring gene long intergenic non-protein coding RNA 1056 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:61687794-61687994 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61690954-61691796 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61691797-61692638 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:61699516-61700022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61700597-61701098 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61701099-61701598 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18224 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13145 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61704121-61704620 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13146 Neighboring gene highly accelerated region 1B Neighboring gene uncharacterized LOC105372719 Neighboring gene MPRA-validated peak4307 silencer Neighboring gene highly accelerated region 1A Neighboring gene ReSE screen-validated silencer GRCh37_chr20:61751164-61751347 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:61753175-61753676

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. A genome-wide search for loci interacting with known prostate cancer risk-associated genetic variants. Tao S, et al. Carcinogenesis, 2012 Mar. PMID 22219177, Free PMC Article
  2. The DNA sequence and comparative analysis of human chromosome 20. Deloukas P, et al. Nature, 2001 Dec 20-27. PMID 11780052
  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

EBI GWAS Catalog

Description
A genome-wide search for loci interacting with known prostate cancer risk-associated genetic variants.
EBI GWAS Catalog

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

  • FLJ17648, FLJ46471

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_033370.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    CP068258
    Related
    ENST00000607802.1

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_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    63009383..63085071
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    64809723..64887929
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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