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LINC00208 long intergenic non-protein coding RNA 208 [ Homo sapiens (human) ]

Gene ID: 83655, updated on 17-Sep-2024

Summary

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Official Symbol
LINC00208provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 208provided by HGNC
Primary source
HGNC:HGNC:15535
See related
Ensembl:ENSG00000170983 AllianceGenome:HGNC:15535
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
VIR35; C8orf14; NCRNA00208
Expression
Low expression observed in reference dataset See more
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Genomic context

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See LINC00208 in Genome Data Viewer
Location:
8p23.1
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (11576535..11581341)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (8158926..8163743, complement)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (11434044..11438850)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene FAM167A antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:11282034-11282577 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:11282578-11283120 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11293411-11293930 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11293931-11294450 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:11295726-11295929 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:11300354-11300945 Neighboring gene family with sequence similarity 167 member A Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11309217-11309792 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11309793-11310368 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11310369-11310944 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18929 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18930 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27008 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18931 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11325425-11326194 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27009 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18932 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27010 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27011 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27012 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27013 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27014 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18933 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27015 Neighboring gene CRISPRi-FlowFISH-validated BLK regulatory element GRCh37_chr8:11349255-11350515 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:11351829-11353028 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27019 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27020 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27021 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27022 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27023 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27024 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27025 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:11395673-11395837 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27026 Neighboring gene BLK proto-oncogene, Src family tyrosine kinase Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27027 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18934 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27028 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:11407118-11408317 Neighboring gene uncharacterized LOC105379241 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27029 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27030 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18935 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:11424419-11425618 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:11456947-11457783 Neighboring gene MPRA-validated peak6905 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11478375-11478875 Neighboring gene Sharpr-MPRA regulatory region 10445 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11487938-11488828 Neighboring gene uncharacterized LOC105379242 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:11530424-11530618 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:11532437-11532959 Neighboring gene VISTA enhancer hs2204 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18936 Neighboring gene GATA binding protein 4 Neighboring gene small nucleolar RNA, H/ACA box 99

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. Physical and transcriptional map of the critical region for keratolytic winter erythema (KWE) on chromosome 8p22-p23 between D8S550 and D8S1759. Appel S, et al. Eur J Hum Genet, 2002 Jan. PMID 11896452
  2. Genome-wide association study of chronic periodontitis in a general German population. Teumer A, et al. J Clin Periodontol, 2013 Nov. PMID 24024966

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
Genome-wide association study of chronic periodontitis in a general German population.
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)

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_040035.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AJ291678
    Related
    ENST00000304233.3

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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    11576535..11581341
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_018654717.1 Reference GRCh38.p14 PATCHES

    Range
    1766767..1771584 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    8158926..8163743 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_054029.1: Suppressed sequence

    Description
    NM_054029.1: This RefSeq record was removed by NCBI staff. Contact [email protected] for further information.
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q96KT6.1 GenPept UniProtKB/Swiss-Prot:Q96KT6

Gene LinkOut

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