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LINC00954 long intergenic non-protein coding RNA 954 [ Homo sapiens (human) ]

Gene ID: 400946, updated on 17-Sep-2024

Summary

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Official Symbol
LINC00954provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 954provided by HGNC
Primary source
HGNC:HGNC:48668
See related
Ensembl:ENSG00000228784 AllianceGenome:HGNC:48668
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
Broad expression in spleen (RPKM 1.0), lymph node (RPKM 1.0) and 21 other tissues See more
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Genomic context

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See LINC00954 in Genome Data Viewer
Location:
2p24.1
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (19868854..19885047)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (19902402..19918580)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (20068615..20084808)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105373461 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:19930957-19931473 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:19973852-19974779 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:19974780-19975706 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr2:19985907-19987106 Neighboring gene CDGSH iron sulfur domain 1 pseudogene 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:20050625-20051377 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:20061978-20062478 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:20063272-20063772 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15365 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:20100705-20101586 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:20101587-20102467 Neighboring gene tetratricopeptide repeat domain 32 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15370 Neighboring gene WD repeat domain 35 Neighboring gene ring finger protein, transmembrane 1 pseudogene 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. 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
  2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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)

General gene information

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Markers

Clone Names

  • FLJ12334, FLJ40608, AC013400.2

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_033875.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC013400, BC068572, DB155534
    Related
    ENST00000449086.5

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    19868854..19885047
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    19902402..19918580
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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