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LINC01983 long intergenic non-protein coding RNA 1983 [ Homo sapiens (human) ]

Gene ID: 101929697, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01983provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1983provided by HGNC
Primary source
HGNC:HGNC:52813
See related
AllianceGenome:HGNC:52813
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 kidney (RPKM 1.6) and esophagus (RPKM 0.6) See more
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Genomic context

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Location:
3q29
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (195836455..195860404, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (198497459..198521360)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (195563326..195587275, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr3:195474413-195474579 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195489021-195489522 Neighboring gene mucin 4, cell surface associated Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195495435-195495936 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:195505212-195506411 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:195508163-195508662 Neighboring gene Sharpr-MPRA regulatory region 430 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195533677-195534240 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195535933-195536496 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195536497-195537060 Neighboring gene vegetative cell wall protein gp1-like Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195543301-195544106 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr3:195547535-195548734 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr3:195550530-195551217 Neighboring gene Neanderthal introgressed variant-containing enhancers experimental_67540 and experimental_67545 Neighboring gene Neanderthal introgressed variant-containing enhancers experimental_67549, experimental_67550 and experimental_67551 Neighboring gene MPRA-validated peak4987 silencer Neighboring gene uncharacterized LOC107984010 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195577694-195578194 Neighboring gene kinesin family member 3A pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195586662-195587186 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195587187-195587709 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195604399-195604953 Neighboring gene tyrosine kinase non receptor 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195610157-195610657 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195613501-195614264 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195615031-195615794 Neighboring gene microRNA 6829 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15041 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15042 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21059 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195623973-195624772 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195625602-195626282 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21060 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21061 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21062 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15043 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15044 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15045 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21063 Neighboring gene TNK2 antisense RNA 1

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. Shotgun sequencing of the human transcriptome with ORF expressed sequence tags. Dias Neto E, et al. Proc Natl Acad Sci U S A, 2000 Mar 28. PMID 10737800, 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

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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Clone Names

  • AC124944.5

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_134939.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC124944, AI799807, BI042007

  2. NR_134940.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) uses an alternate 5'-terminal exon compared to variant 1.
    Source sequence(s)
    AI799807, DA288418

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    195836455..195860404 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    198497459..198521360
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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