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    LINC01770 long intergenic non-protein coding RNA 1770 [ Homo sapiens (human) ]

    Gene ID: 102724312, updated on 22-Oct-2024

    Summary

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    Official Symbol
    LINC01770provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 1770provided by HGNC
    Primary source
    HGNC:HGNC:52560
    See related
    Ensembl:ENSG00000225285 AllianceGenome:HGNC:52560
    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 prostate (RPKM 1.7), salivary gland (RPKM 1.1) and 21 other tissues See more
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    Genomic context

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    See LINC01770 in Genome Data Viewer
    Location:
    1p36.33
    Exon count:
    2
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (1430157..1434573, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (864517..868933, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (1365537..1369953, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:1343205-1343871 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:1344795-1345682 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:1345683-1346571 Neighboring gene MRPL20 divergent transcript Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:1346572-1347459 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 16 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17 Neighboring gene ANKRD65 antisense RNA 1 Neighboring gene ankyrin repeat domain 65 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:1360776-1361641 Neighboring gene transmembrane protein 88B Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:1367749-1368492 Neighboring gene uncharacterized LOC107985729 Neighboring gene Sharpr-MPRA regulatory region 8235 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:1370998-1371187 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20 Neighboring gene von Willebrand factor A domain containing 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:1389959-1390458 Neighboring gene ATPase family AAA domain containing 3C Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:1397006-1397780 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 22

    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 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. Normalization and subtraction: two approaches to facilitate gene discovery. Bonaldo MF, et al. Genome Res, 1996 Sep. PMID 8889548

    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)

    See Variation Viewer (GRCh38)

    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_125994.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AL391244, BM699504, BM726062
      Related
      ENST00000729998.1

    2. NR_125995.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 3' exon, resulting in a shorter transcript compared to variant 1.
      Source sequence(s)
      AL391244, BM699504, BM726062
      Related
      ENST00000729996.1

    3. NR_125996.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) uses alternate splice sites in the 5' and 3' exons, resulting in a shorter transcript than variant 1.
      Source sequence(s)
      AL391244, BM699504

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

    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
      1430157..1434573 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      864517..868933 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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