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LINC02996 long intergenic non-protein coding RNA 2996 [ Homo sapiens (human) ]

Gene ID: 101926960, updated on 10-Oct-2023

Summary

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Official Symbol
LINC02996provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2996provided by HGNC
Primary source
HGNC:HGNC:56112
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
Restricted expression toward fat (RPKM 28.1) See more
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Genomic context

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Location:
5p13.1
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (42155833..42175345, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (42413137..42430856, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (42155935..42175447, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene MPRA-validated peak5238 silencer Neighboring gene F-box protein 4 Neighboring gene ribosomal protein SA pseudogene 38 Neighboring gene methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, methenyltetrahydrofolate cyclohydrolase pseudogene 6 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:42078724-42079249 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:42090075-42091274 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_85089 Neighboring gene NANOG hESC enhancer GRCh37_chr5:42225166-42225693 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_85146 Neighboring gene NANOG hESC enhancer GRCh37_chr5:42288621-42289193 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_85179 Neighboring gene GHR upstream promoter region module A Neighboring gene zinc finger protein 35 pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:42508817-42509317 Neighboring gene SERPINE1 mRNA binding protein 1 pseudogene 6 Neighboring gene growth hormone receptor Neighboring gene GHR downstream promoter region module B Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:42756975-42757476 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:42757477-42757976 Neighboring gene coiled-coil domain containing 152 Neighboring gene selenoprotein P

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

General gene information

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Other Names

  • IGF1R/AK000840 fusion
  • TCONS_00010315

Clone Names

  • FLJ20833, DKFZp313C1224

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_104635.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC108099

  2. NR_104636.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an exon and contains an alternate exon, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AC108099

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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    42155833..42175345 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    42413137..42430856 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases