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LINC01684 long intergenic non-protein coding RNA 1684 [ Homo sapiens (human) ]

Gene ID: 105372751, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01684provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1684provided by HGNC
Primary source
HGNC:HGNC:52472
See related
Ensembl:ENSG00000237484 AllianceGenome:HGNC:52472
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
lnc-JAM2-6
Expression
Low expression observed in reference dataset See more
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Genomic context

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Location:
21q21.2
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (24428740..24547942)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (22786169..22905376)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (25801054..25920256)

Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene MPRA-validated peak4384 silencer Neighboring gene vomeronasal 2 receptor 20 pseudogene Neighboring gene MPRA-validated peak4387 silencer Neighboring gene long intergenic non-protein coding RNA 1689 Neighboring gene MPRA-validated peak4389 silencer Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_61838 Neighboring gene MPRA-validated peak4391 silencer Neighboring gene meiotic recombination hotspot A Neighboring gene long intergenic non-protein coding RNA 1692 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18302 Neighboring gene uncharacterized LOC107985516 Neighboring gene MIA SH3 domain ER export factor 2 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. Genetic variation in long noncoding RNAs and the risk of nonalcoholic fatty liver disease. Sookoian S, et al. Oncotarget, 2017 Apr 4. PMID 28206970, Free PMC Article
  2. 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

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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Clone Names

  • FLJ42200, AP000476.1

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_135519.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AP000476, BX538159, DB125182
    Related
    ENST00000415182.1

  2. NR_135520.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AK124194, AP000476
    Related
    ENST00000453784.2

  3. NR_135521.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AP000476

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_000021.9 Reference GRCh38.p14 Primary Assembly

    Range
    24428740..24547942
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060945.1 Alternate T2T-CHM13v2.0

    Range
    22786169..22905376
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases