U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LINC00642 long intergenic non-protein coding RNA 642 [ Homo sapiens (human) ]

Gene ID: 400238, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Official Symbol
LINC00642provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 642provided by HGNC
Primary source
HGNC:HGNC:44293
See related
Ensembl:ENSG00000233208 AllianceGenome:HGNC:44293
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
Restricted expression toward testis (RPKM 1.8) See more
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
14q32.11
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 14 NC_000014.9 (90455230..90458905)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 14 NC_060938.1 (84679941..84683616)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 14 NC_000014.8 (90921574..90925249)

Chromosome 14 - NC_000014.9Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 5900 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8880 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6008 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6009 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6010 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6011 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8881 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr14:90870785-90871984 Neighboring gene calmodulin 1 Neighboring gene MPRA-validated peak2228 silencer Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:90905675-90906438 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 8882 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr14:90920205-90920822 and GRCh37_chr14:90920823-90921440 Neighboring gene long intergenic non-protein coding RNA 2317 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:90953133-90953634 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:90962117-90962616 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:90967372-90968082 Neighboring gene uncharacterized LOC124903359 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr14:90975958-90976791 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:90978459-90979291 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr14:90979510-90980022 Neighboring gene Sharpr-MPRA regulatory region 509 Neighboring gene uncharacterized LOC105370619

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Expression

Go to the top of the page Help
  • 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

Go to the top of the pageHelp

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

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

Go to the top of the page Help

Clone Names

  • FLJ35947, AL096869.5

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_033986.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BC036259, BX101323
    Related
    ENST00000442515.5

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
    90455230..90458905
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060938.1 Alternate T2T-CHM13v2.0

    Range
    84679941..84683616
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
Molecular Biology Databases
Research Materials