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LINC00643 long intergenic non-protein coding RNA 643 [ Homo sapiens (human) ]

Gene ID: 646113, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00643provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 643provided by HGNC
Primary source
HGNC:HGNC:44296
See related
AllianceGenome:HGNC:44296
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
Biased expression in brain (RPKM 11.4), placenta (RPKM 2.4) and 2 other tissues See more
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Genomic context

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Location:
14q23.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (62117357..62134186)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (56324579..56341409)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (62584075..62600904)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr14:62298837-62299336 Neighboring gene cytochrome c oxidase subunit 4I1 pseudogene 1 Neighboring gene synaptotagmin 16 Neighboring gene molybdenum cofactor synthesis 3 pseudogene 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:62396930-62397782 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5826 Neighboring gene NANOG hESC enhancer GRCh37_chr14:62537700-62538201 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8503 Neighboring gene tubulin alpha 1c pseudogene Neighboring gene long intergenic non-protein coding RNA 644 Neighboring gene NANOG hESC enhancer GRCh37_chr14:62653909-62654521 Neighboring gene uncharacterized LOC105370529 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr14:62912186-62912720 Neighboring gene uncharacterized LOC105370528

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. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  2. 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

Clone Names

  • FLJ18510, FLJ37214, FLJ39142, FLJ43390

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_015358.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL390816

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_000014.9 Reference GRCh38.p14 Primary Assembly

    Range
    62117357..62134186
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    56324579..56341409
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001039785.1: Suppressed sequence

    Description
    NM_001039785.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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