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LINC00339 long intergenic non-protein coding RNA 339 [ Homo sapiens (human) ]

Gene ID: 29092, updated on 13-May-2022

Summary

Official Symbol
LINC00339provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 339provided by HGNC
Primary source
HGNC:HGNC:25011
See related
Ensembl:ENSG00000218510 AllianceGenome:HGNC:25011
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
HSPC157; NCRNA00339
Expression
Ubiquitous expression in pancreas (RPKM 12.3), ovary (RPKM 9.6) and 25 other tissues See more
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Genomic context

See LINC00339 in Genome Data Viewer
Location:
1p36.12
Exon count:
4
Annotation release Status Assembly Chr Location
110 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (22025191..22031224)
110 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (21848994..21855007)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (22351684..22357717)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene chymotrypsin like elastase 3A Neighboring gene RNA, 7SL, cytoplasmic 186, pseudogene Neighboring gene RNA, U6 small nuclear 776, pseudogene Neighboring gene Sharpr-MPRA regulatory region 3950 Neighboring gene long intergenic non-protein coding RNA 1635 Neighboring gene cell division cycle 42 Neighboring gene M-phase phosphoprotein 6-like Neighboring gene Sharpr-MPRA regulatory region 8542

Genomic regions, transcripts, and products

Expression

  • 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

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Interactions

Products Interactant Other Gene Complex Source Pubs Description

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_023918.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) contains an alternate 5'-terminal exon and lacks an internal exon, compared to variant 3.
    Source sequence(s)
    AL031281, BC071749, CA489192
    Related
    ENST00000434233.2
  2. NR_023919.2 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) lacks an internal exon, compared to variant 3.
    Source sequence(s)
    AF161506, AL031281, BX509008, CA489192
    Related
    ENST00000416769.2
  3. NR_109759.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (6) uses an alternate splice site in the 5' region and lacks an internal exon, compared to variant 3.
    Source sequence(s)
    AF161506, AL031281, BX509008, CA489192
  4. NR_109760.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (5) lacks an internal exon and uses an alternate splice site in the 3' region, compared to variant 3.
    Source sequence(s)
    AF161506, AL031281, BX509008, CA489192
  5. NR_109761.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (4) uses an alternate splice site in the 5' region, compared to variant 3.
    Source sequence(s)
    AL031281, BG432520, BX509008
  6. NR_109762.1 RNA Sequence

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) represents the longest transcript.
    Source sequence(s)
    AL031281, BG432520, BX509008, H87321

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 110 details...Open this link in a new tab

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    22025191..22031224
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    21848994..21855007
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_014179.1: Suppressed sequence

    Description
    NM_014179.1: This RefSeq record was removed by NCBI staff. Contact info@ncbi.nlm.nih.gov for further information.