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LINC00400 long intergenic non-protein coding RNA 400 [ Homo sapiens (human) ]

Gene ID: 100874159, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00400provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 400provided by HGNC
Primary source
HGNC:HGNC:42729
See related
AllianceGenome:HGNC:42729
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
Broad expression in adrenal (RPKM 1.7), brain (RPKM 0.9) and 17 other tissues See more
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Genomic context

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Location:
13q14.11
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (43113165..43159466)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (42331605..42377904)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (43687301..43733602)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370178 Neighboring gene epithelial stromal interaction 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7656 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43559741-43560242 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7657 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7658 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7659 Neighboring gene uncharacterized LOC105370179 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7660 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7661 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7662 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43610507-43611076 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:43615193-43616041 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7663 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7664 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:43620285-43620960 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7667 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7665 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7666 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr13:43632313-43632832 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr13:43635435-43635954 Neighboring gene DnaJ heat shock protein family (Hsp40) member C15 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43693053-43693554 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:43693555-43694054 Neighboring gene LINC00400 intron CAGE-defined mid-level expression enhancer Neighboring gene NANOG hESC enhancer GRCh37_chr13:43765633-43766138 Neighboring gene molybdenum cofactor synthesis 3 pseudogene 2 Neighboring gene NANOG hESC enhancer GRCh37_chr13:43844306-43844807 Neighboring gene ecto-NOX disulfide-thiol exchanger 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7668 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7669 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr13:43933647-43934232 Neighboring gene ribosomal protein L36 pseudogene 19

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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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

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_047013.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL138709, AL445217, AV711458

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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    43113165..43159466
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    42331605..42377904
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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