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LINC00354 long intergenic non-protein coding RNA 354 [ Homo sapiens (human) ]

Gene ID: 101928616, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00354provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 354provided by HGNC
Primary source
HGNC:HGNC:42672
See related
Ensembl:ENSG00000226903 AllianceGenome:HGNC:42672
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 testis (RPKM 1.6) See more
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Genomic context

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Location:
13q34
Exon count:
5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (111893378..111901176)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (111136917..111144703)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (112547692..112555490)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102724489 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr13:112322811-112323586 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112328767-112329267 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112331801-112332368 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112344803-112345788 Neighboring gene uncharacterized LOC102724510 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112506195-112507184 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112507185-112508174 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112513428-112514170 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr13:112514171-112514912 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:112547335-112548032 Neighboring gene SOX1 overlapping transcript Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112666027-112666570 Neighboring gene uncharacterized LOC105378193 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr13:112682419-112682919 Neighboring gene small nucleolar RNA SNORD44

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. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

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_046992.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 5' terminal exon and contains an alternate 3' exon structure, resulting in a shorter transcript, compared to variant 1.
    Source sequence(s)
    AL136302, BX117816, DB457517
    Related
    ENST00000655663.1

  2. NR_120401.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) represents the longer transcript.
    Source sequence(s)
    AL136302, HY022991

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
    111893378..111901176
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    111136917..111144703
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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