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LINC03002 long intergenic non-protein coding RNA 3002 [ Homo sapiens (human) ]

Gene ID: 101928304, updated on 10-Oct-2023

Summary

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Official Symbol
LINC03002provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 3002provided by HGNC
Primary source
HGNC:HGNC:56123
See related
Ensembl:ENSG00000232310
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 heart (RPKM 6.4), spleen (RPKM 1.0) and 5 other tissues See more
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Genomic context

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Location:
6q23.2
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 6 NC_000006.12 (134525318..134540005, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 6 NC_060930.1 (135713555..135728233, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (134846456..134861143, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene coiled-coil-helix-coiled-coil-helix domain containing 2 pseudogene 4 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:134757040-134758239 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25090 Neighboring gene long intergenic non-protein coding RNA 1010 Neighboring gene cancer/testis associated transcript 69 Neighboring gene ReSE screen-validated silencer GRCh37_chr6:134808766-134808977 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:134855294-134856493 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr6:134858047-134859246 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr6:134905935-134906540 Neighboring gene family with sequence similarity 8 member A6, pseudogene Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr6:134982153-134982990 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_90067 Neighboring gene uncharacterized LOC101928277 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr6:135027094-135027688 Neighboring gene NANOG hESC enhancer GRCh37_chr6:135171948-135172481 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25091 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25092 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25093 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25094 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25095

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. 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

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_125855.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AL078590, AV705921, CA430304, DA256978

  2. NR_125856.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an alternate internal exon, resulting in a shorter transcript than variant 1.
    Source sequence(s)
    AL078590, AV705921, CA430304
    Related
    ENST00000668030.1

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_000006.12 Reference GRCh38.p14 Primary Assembly

    Range
    134525318..134540005 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060930.1 Alternate T2T-CHM13v2.0

    Range
    135713555..135728233 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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