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LINC00402 long intergenic non-protein coding RNA 402 [ Homo sapiens (human) ]

Gene ID: 100507612, updated on 26-Oct-2024

Summary

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Official Symbol
LINC00402provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 402provided by HGNC
Primary source
HGNC:HGNC:42732
See related
Ensembl:ENSG00000235532 AllianceGenome:HGNC:42732
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
LINC00381
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Genomic context

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See LINC00402 in Genome Data Viewer
Location:
13q22.1
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (74231444..74259976)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (73453407..73481946)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (74805581..74834113)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC128966561 Neighboring gene long intergenic non-protein coding RNA 393 Neighboring gene uncharacterized LOC105370256 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:74214267-74214908 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:74214909-74215550 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:74289066-74290265 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:74305638-74306208 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:74340128-74340628 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:74341622-74342257 Neighboring gene KLF transcription factor 12 Neighboring gene uncharacterized LOC124903182 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_33299 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_33300 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_33301 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_33303 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7817 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:74609849-74610779 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:74610780-74611709 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7818 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7819 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5399 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7820 Neighboring gene NANOG hESC enhancer GRCh37_chr13:74749652-74750153 Neighboring gene Sharpr-MPRA regulatory region 11269 Neighboring gene HNF1 motif-containing MPRA enhancer 52 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:74815323-74815876 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:74861026-74861526 Neighboring gene Sharpr-MPRA regulatory region 2285 Neighboring gene uncharacterized LOC105370259 Neighboring gene NANOG hESC enhancer GRCh37_chr13:74875892-74876393 Neighboring gene RNY1 pseudogene 5 Neighboring gene ribosomal protein L21 pseudogene 108

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 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. RNA-seq of human T cells after hematopoietic stem cell transplantation identifies Linc00402 as a regulator of T cell alloimmunity. Peltier D, et al. Sci Transl Med, 2021 Mar 17. PMID 33731431, 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

What's a GeneRIF?
  1. RNA-seq of human T cells after hematopoietic stem cell transplantation identifies Linc00402 as a regulator of T cell alloimmunity.
    Title: RNA-seq of human T cells after hematopoietic stem cell transplantation identifies Linc00402 as a regulator of T cell alloimmunity.
Submit: New GeneRIF Correction

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)

Genotypes

General gene information

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Markers

Other Names

  • long intergenic non-protein coding RNA 381

Clone Names

  • FLJ32127

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_144451.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AK056689, AL353660, DA938088
    Related
    ENST00000419499.2

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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    74231444..74259976
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    73453407..73481946
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Chemical Information
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