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LINC02953 long intergenic non-protein coding RNA 2953 [ Homo sapiens (human) ]

Gene ID: 102724265, updated on 9-Jun-2025
Official Symbol
LINC02953provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2953provided by HGNC
Primary source
HGNC:HGNC:55970
See related
Ensembl:ENSG00000255980 AllianceGenome:HGNC:55970
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
Orthologs
all
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See LINC02953 in Genome Data Viewer
Location:
11q13.3
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (69425655..69429624)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (69442793..69446762)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (69240423..69244392)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69078345-69078844 Neighboring gene interferon induced transmembrane protein 9 pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69088091-69088958 Neighboring gene uncharacterized LOC105369370 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5158 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69153613-69154114 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69154115-69154614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69157262-69158194 Neighboring gene MPRA-validated peak1324 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69214023-69214785 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69215486-69215986 Neighboring gene CRISPRi-validated cis-regulatory element chr11.3768 Neighboring gene CRISPRi-validated cis-regulatory element chr11.3769 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69234157-69234732 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69235307-69235881 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69249331-69250160 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69251823-69252654 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69253485-69254316 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5159 Neighboring gene long intergenic non-protein coding RNA 2952 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3693 Neighboring gene uncharacterized LOC124902703 Neighboring gene GATA motif-containing MPRA enhancer 291 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69270026-69270770 Neighboring gene NANOG hESC enhancer GRCh37_chr11:69276040-69276608 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69278453-69279186 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69289663-69290348 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:69290349-69291033 Neighboring gene OCT4-NANOG-H3K4me1 hESC enhancer GRCh37_chr11:69291034-69291718 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69291719-69292403 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69295265-69296231 Neighboring gene long intergenic non-protein coding RNA 2747

Go to nucleotide: Graphics FASTA GenBank

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Related articles in PubMed

  1. Genome-wide association study of renal cell carcinoma identifies two susceptibility loci on 2p21 and 11q13.3. Purdue MP, et al. Nat Genet, 2011 Jan. PMID 21131975, 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

GeneRIFs: Gene References Into Functions

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
Genome-wide association study of renal cell carcinoma identifies two susceptibility loci on 2p21 and 11q13.3.
EBI GWAS Catalog

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Homology

Clone Names

  • AP000439.1

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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_172877.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AP000439
    Related
    ENST00000545202.4

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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    69425655..69429624
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    69442793..69446762
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001319657.2: Suppressed sequence

    Description
    NM_001319657.2: This RefSeq was removed because it is now thought that this gene does not encode a protein.
Nucleotide Protein
Heading Accession and Version

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