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LINC00396 long intergenic non-protein coding RNA 396 [ Homo sapiens (human) ]

Gene ID: 104355146, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00396provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 396provided by HGNC
Primary source
HGNC:HGNC:42724
See related
Ensembl:ENSG00000231428 AllianceGenome:HGNC:42724
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
Low expression observed in reference dataset See more
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Genomic context

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Location:
13q34
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (110053285..110054952)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (109282072..109283739)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (110705632..110707299)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105370360 Neighboring gene Sharpr-MPRA regulatory region 11013 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110460038-110460538 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:110492397-110493596 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:110509939-110511138 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr13:110556058-110557257 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110585574-110586074 Neighboring gene RN7SK pseudogene 10 Neighboring gene long intergenic non-protein coding RNA 3082 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32398 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:110664005-110665204 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr13:110669511-110670710 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_32415 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110717693-110718192 Neighboring gene RNA, 7SL, cytoplasmic 783, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7990 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:110772997-110773496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7991 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr13:110774733-110775932 Neighboring gene long intergenic non-protein coding RNA 3032

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_126387.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL390755
    Related
    ENST00000411690.2

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
    110053285..110054952
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    109282072..109283739
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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