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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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    See LINC00877 in Genome Data Viewer
    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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