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LINC00877 long intergenic non-protein coding RNA 877 [ Homo sapiens (human) ]

Gene ID: 285286, updated on 10-Oct-2023

Summary

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Official Symbol
LINC00877provided by HGNC
Official Full Name
long intergenic non-protein coding RNA 877provided by HGNC
Primary source
HGNC:HGNC:27706
See related
Ensembl:ENSG00000241163 AllianceGenome:HGNC:27706
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 lymph node (RPKM 1.5), appendix (RPKM 1.5) and 15 other tissues See more
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Genomic context

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Location:
3p13
Exon count:
7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (72035519..72100455, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (72074697..72140430, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (72084670..72149606, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105377157 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:72054171-72054383 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:72067180-72068379 Neighboring gene UBE2Q2 pseudogene 9 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:72073913-72074414 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:72074415-72074914 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:72096703-72097203 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20067 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20069 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20068 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14525 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20070 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:72136311-72137027 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:72137028-72137745 Neighboring gene CCDC137 pseudogene 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20071 Neighboring gene CCDC137 pseudogene 1 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr3:72148884-72149724 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:72184639-72185213 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20072 Neighboring gene long intergenic non-protein coding RNA 870 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20073 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20074 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20075 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20076 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20077 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:72226281-72226881 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14526 Neighboring gene Sharpr-MPRA regulatory region 12200 Neighboring gene NANOG hESC enhancer GRCh37_chr3:72242807-72243499 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:72245432-72246000 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:72252370-72252906 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:72252907-72253442 Neighboring gene uncharacterized LOC124909393

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. A genome-wide search for common SNP x SNP interactions on the risk of venous thrombosis. Greliche N, et al. BMC Med Genet, 2013 Mar 20. PMID 23509962, 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
  3. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

GeneRIFs: Gene References Into Functions

Phenotypes

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Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
A genome-wide search for common SNP x SNP interactions on the risk of venous thrombosis.
EBI GWAS Catalog

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

General gene information

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Markers

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_104116.1 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    AC105265, AK097190, DA590669
    Related
    ENST00000468646.6

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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    72035519..72100455 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    72074697..72140430 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

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