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LINC00652 long intergenic non-protein coding RNA 652 [ Homo sapiens (human) ]

Gene ID: 29075, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00652provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 652provided by HGNC
Primary source
HGNC:HGNC:25003
See related
Ensembl:ENSG00000179935 AllianceGenome:HGNC:25003
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
HSPC072
Expression
Low expression observed in reference dataset See more
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Genomic context

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See LINC00652 in Genome Data Viewer
Location:
20p11.23
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (18787971..18794584, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (18839824..18846424, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (18768615..18775228, complement)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene D-aminoacyl-tRNA deacylase 1 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr20:18663802-18664671 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:18680289-18680436 Neighboring gene DTD1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:18708845-18709368 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:18774369-18774908 Neighboring gene eukaryotic translation elongation factor 1 alpha 1 pseudogene 34 Neighboring gene SCP2D1 antisense RNA 1 Neighboring gene lysosome cell death regulator Neighboring gene SCP2 sterol binding domain containing 1 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:18897388-18898587 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17594 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17595 Neighboring gene uncharacterized LOC102724734 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:19028509-19029708 Neighboring gene uncharacterized LOC107985442

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. Cloning and functional analysis of cDNAs with open reading frames for 300 previously undefined genes expressed in CD34+ hematopoietic stem/progenitor cells. Zhang QH, et al. Genome Res, 2000 Oct. PMID 11042152, Free PMC Article
  2. 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
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  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 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

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_026883.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AF161557, AL035563, BC029555, DB097906

  2. NR_026884.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate 5' splice pattern.
    Source sequence(s)
    AL035563, BC029555, DA760399
    Related
    ENST00000669396.1

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
    18787971..18794584 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    18839824..18846424 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_014162.1: Suppressed sequence

    Description
    NM_014162.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version

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