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    LINC01366 long intergenic non-protein coding RNA 1366 [ Homo sapiens (human) ]

    Gene ID: 257358, updated on 10-Dec-2024

    Summary

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    Official Symbol
    LINC01366provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 1366provided by HGNC
    Primary source
    HGNC:HGNC:27416
    See related
    Ensembl:ENSG00000235172 AllianceGenome:HGNC:27416
    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
    Low expression observed in reference dataset See more
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    Genomic context

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    See LINC01366 in Genome Data Viewer
    Location:
    5q35.1
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (170331393..170335100)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (170870237..170873944)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (169758397..169762104)

    Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene chromosome 5 open reading frame 58 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16604 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23604 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16605 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23605 Neighboring gene lymphocyte cytosolic protein 2 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr5:169730050-169731249 Neighboring gene uncharacterized LOC100128059 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23606 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23607 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:169757700-169758899 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:169759699-169760548 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:169760549-169761396 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23610 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:169788107-169788607 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:169814486-169814986 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:169814987-169815487 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:169817412-169817912 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:169817913-169818413 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:169818666-169819166 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:169819167-169819667 Neighboring gene potassium voltage-gated channel interacting protein 1 Neighboring gene KCNIP1 overlapping transcript 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23611 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16606 Neighboring gene potassium calcium-activated channel subfamily M regulatory beta subunit 1

    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. 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
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    3. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, et al. Proc Natl Acad Sci U S A, 2002 Dec 24. PMID 12477932, 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)

    See Variation Viewer (GRCh38)

    General gene information

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    Markers

    Other Names

    • CTB-114C7.3

    Clone Names

    • MGC138199

    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_026945.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AC034199, BQ053612, DB107949, DB343102

    2. NR_108024.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) uses an alternate splice site in the 5' terminal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AK093725, CD518314, DB107949
      Related
      ENST00000662612.1

    3. NR_108025.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an alternate internal exon, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AK093725, BG494977, DB107949
      Related
      ENST00000665008.2

    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_000005.10 Reference GRCh38.p14 Primary Assembly

      Range
      170331393..170335100
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060929.1 Alternate T2T-CHM13v2.0

      Range
      170870237..170873944
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001025454.1: Suppressed sequence

      Description
      NM_001025454.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
    Nucleotide Protein
    Heading Accession and Version

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