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    LINC00623 long intergenic non-protein coding RNA 623 [ Homo sapiens (human) ]

    Gene ID: 728855, updated on 17-Sep-2024

    Summary

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    Official Symbol
    LINC00623provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 623provided by HGNC
    Primary source
    HGNC:HGNC:44252
    See related
    AllianceGenome:HGNC:44252
    Gene type
    ncRNA
    RefSeq status
    VALIDATED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    CH17-118O6.2
    Expression
    Ubiquitous expression in lymph node (RPKM 5.8), spleen (RPKM 5.8) and 25 other tissues See more
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    Genomic context

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    See LINC00623 in Genome Data Viewer
    Location:
    1p11.2
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (120912238..120955811)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (120921611..120965202)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (144298164..144341756, complement)

    Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1251 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:147993136-147993980 Neighboring gene RNA, variant U1 small nuclear 19 Neighboring gene uncharacterized LOC124904393 Neighboring gene peptidylprolyl isomerase A like 4A Neighboring gene uncharacterized LOC100996720 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:149577239-149577777 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:149577778-149578315 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:144496218-144496799 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:149601377-149602004 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:149602005-149602632 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:144493899-144494399 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:144493398-144493898 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:144491667-144492381 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:144310745-144311448 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:144481363-144482061 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:144480662-144481362 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:149619223-149619776 Neighboring gene RNA, variant U1 small nuclear 4 Neighboring gene NBPF member 6 pseudogene Neighboring gene family with sequence similarity 91 member A4, pseudogene Neighboring gene PDE4DIP pseudogene 4

    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. Discriminative and prognostic significance of LINC00623 for lung adenocarcinoma. Lin Y, et al. Ann Biol Clin (Paris), 2024 Feb 24. PMID 38391164
    2. Long non-coding RNA ENST00000457645 reverses cisplatin resistance in CP70 ovarian cancer cells. Yan H, et al. Genet Mol Res, 2017 Jan 23. PMID 28128423
    3. Transcriptome analysis of human gastric cancer. Oh JH, et al. Mamm Genome, 2005 Dec. PMID 16341674
    4. 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
    5. 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

    What's a GeneRIF?
    1. Discriminative and prognostic significance of LINC00623 for lung adenocarcinoma.
      Title: Discriminative and prognostic significance of LINC00623 for lung adenocarcinoma.
    Submit: New GeneRIF Correction

    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

    General gene information

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    Markers

    Clone Names

    • FLJ18420

    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_024510.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longest transcript.
      Source sequence(s)
      AC241377, AK311378, DA488546

    2. NR_024511.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an internal segment in the 3' region, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC241377, BM761975, DA488546

    3. NR_024584.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (4) differs at the 5' end and lacks an internal segment in the 3' region, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC241377

    4. NR_109754.2 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (3) lacks an internal segment in the 3' region, resulting in a shorter transcript, compared to variant 1.
      Source sequence(s)
      AC241377, BE890886, DA488546

    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
      120912238..120955811
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060925.1 Alternate T2T-CHM13v2.0

      Range
      120921611..120965202
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

    The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

    Molecular Biology Databases
    Research Materials