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LINC02475 long intergenic non-protein coding RNA 2475 [ Homo sapiens (human) ]

Gene ID: 100506827, updated on 10-Oct-2023

Summary

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Official Symbol
LINC02475provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 2475provided by HGNC
Primary source
HGNC:HGNC:53418
See related
Ensembl:ENSG00000251350 AllianceGenome:HGNC:53418
Gene type
ncRNA
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
LVCAT1
Expression
Restricted expression toward testis (RPKM 4.4) See more
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Genomic context

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Location:
4p13
Exon count:
2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (44016861..44022061)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (43983692..43988860)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (44018878..44024078)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene NADH:ubiquinone oxidoreductase subunit B4 pseudogene 12 Neighboring gene uncharacterized LOC124900849 Neighboring gene uncharacterized LOC105374438 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:44058850-44059376 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:44183470-44184174 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr4:44184175-44184879 Neighboring gene potassium channel tetramerization domain containing 8 Neighboring gene uncharacterized LOC107986275 Neighboring gene Yip1 domain family member 7

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. The landscape of long noncoding RNAs in the human transcriptome. Iyer MK, et al. Nat Genet, 2015 Mar. PMID 25599403, 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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Markers

Other Names

  • liver cancer-associated transcript 1

Clone Names

  • DKFZp566F0246

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_131958.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AC114757, BC042992
    Related
    ENST00000512678.1

  2. NR_131959.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks a 5' exon and contains an alternate 5' terminal exon, compared to variant 1.
    Source sequence(s)
    AC114757, AL038573, BC042992

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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    44016861..44022061
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    43983692..43988860
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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