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LINC01780 long intergenic non-protein coding RNA 1780 [ Homo sapiens (human) ]

Gene ID: 105378934, updated on 10-Oct-2023

Summary

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Official Symbol
LINC01780provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 1780provided by HGNC
Primary source
HGNC:HGNC:52570
See related
Ensembl:ENSG00000232650 AllianceGenome:HGNC:52570
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
Biased expression in kidney (RPKM 1.2), liver (RPKM 0.4) and 2 other tissues See more
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Genomic context

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Location:
1p12
Exon count:
4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (119328252..119356182)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (119341480..119369410)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (119870875..119898805)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene WARS2 antisense RNA 1 Neighboring gene uncharacterized LOC107985192 Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1591 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:119836037-119836616 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:119836617-119837196 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:119837197-119837776 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:119868596-119869458 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:119869459-119870319 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:119870320-119871181 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr1:119883491-119884293 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:119884294-119885095 Neighboring gene RNA, U1 small nuclear 75, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 1593 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:119900810-119902009 Neighboring gene HAO2 intronic transcript 1 Neighboring gene hydroxyacid oxidase 2 Neighboring gene HSD3B2 5' regulatory region Neighboring gene hydroxy-delta-5-steroid dehydrogenase, 3 beta- and steroid delta-isomerase 2

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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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

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_146623.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AL139346
    Related
    ENST00000457683.1

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    119328252..119356182
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    119341480..119369410
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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Molecular Biology Databases