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LINC01949 long intergenic non-protein coding RNA 1949 [ Homo sapiens (human) ]

Gene ID: 55338, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01949provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1949provided by HGNC
Primary source
HGNC:HGNC:25650
See related
AllianceGenome:HGNC:25650
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 placenta (RPKM 2.3) See more
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Genomic context

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Location:
5q14.3
Exon count:
3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (87215735..87239201, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (87696386..87719856, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (86511552..86535018, complement)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene MIR4280 host gene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22750 Neighboring gene uncharacterized LOC101929380 Neighboring gene RN7SK pseudogene 34 Neighboring gene microRNA 4280 Neighboring gene MPRA-validated peak5332 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22751 Neighboring gene Sharpr-MPRA regulatory region 12969 Neighboring gene Sharpr-MPRA regulatory region 46 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:86563777-86564664 Neighboring gene uncharacterized LOC124901022 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:86595594-86596094 Neighboring gene RAS p21 protein activator 1 Neighboring gene RNA, 7SL, cytoplasmic 629, pseudogene Neighboring gene RNA, U6 small nuclear 606, pseudogene

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. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
  2. 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)

Genotypes

General gene information

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Markers

Other Names

  • CTC-242N15.1

Clone Names

  • FLJ11292

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_130914.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC008394, AK023417

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
    87215735..87239201 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    87696386..87719856 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_018382.1: Suppressed sequence

    Description
    NM_018382.1: This RefSeq was permanently suppressed because it appears to represent expression of a repetitive element.
Nucleotide Protein
Heading Accession and Version

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