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    LINC00673 long intergenic non-protein coding RNA 673 [ Homo sapiens (human) ]

    Gene ID: 100499467, updated on 17-Sep-2024

    Summary

    Official Symbol
    LINC00673provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 673provided by HGNC
    Primary source
    HGNC:HGNC:44354
    See related
    Ensembl:ENSG00000227036 MIM:617079; AllianceGenome:HGNC:44354
    Gene type
    ncRNA
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RASON; SLNCR; SLNCR1; ERRLR01; HILNC75; LUCAIR1; HI-LNC75
    Summary
    This gene produces a long non-protein coding RNA that is involved in the regulation of gene expression during tumor progression. This transcript can promote cell proliferation in gastric cancer through interaction with enhancer of zeste 2 and other epigenetic suppressors of gene expression, thereby downregulating target genes including Kruppel like factors 2 and 4. This transcript may also act as a tumor suppressor by promoting interaction between protein tyrosine phosphatase, non-receptor type 11 (Ptpn11) and ubiquitin ligase, resulting in degradation of Ptpn11 and lowered oncogenic signalling. Naturally-occurring variation at this locus results in the formation of a binding site for miR-1231, which negatively regulates activity of this transcript. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Dec 2017]
    Expression
    Biased expression in stomach (RPKM 5.6), brain (RPKM 5.2) and 13 other tissues See more
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    Genomic context

    See LINC00673 in Genome Data Viewer
    Location:
    17q24.3
    Exon count:
    5
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (72403322..72592804, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (73276401..73465802, complement)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (70399463..70588943, complement)

    Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900392 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8912 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8913 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12668 Neighboring gene long intergenic non-protein coding RNA 2003 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:70374994-70375570 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8914 Neighboring gene Sharpr-MPRA regulatory region 1101 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:70382797-70383298 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:70383299-70383798 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12669 Neighboring gene Sharpr-MPRA regulatory region 2052 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr17:70417088-70418287 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12672 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12673 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12676 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12674 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12675 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12677 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:70426388-70426888 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12678 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:70464235-70464912 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:70472481-70473394 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12679 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:70511237-70511737 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12680 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:70513037-70513545 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8915 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:70552918-70553418 Neighboring gene Sharpr-MPRA regulatory region 2461 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8916 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12681 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:70598976-70599943 Neighboring gene long intergenic non-protein coding RNA 511 Neighboring gene uncharacterized LOC107985005 Neighboring gene ribosomal protein L32 pseudogene 33

    Genomic regions, transcripts, and products

    Expression

    • 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

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Phenotypes

    EBI GWAS Catalog

    Description
    Common variants in left/right asymmetry genes and pathways are associated with relative hand skill.
    EBI GWAS Catalog

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Other Names

    • RAS-ON
    • SRA-like non-coding RNA
    • human islet long non coding RNA 75
    • lung cancer intergenic RNA 1

    Clone Names

    • FLJ20470, FLJ26252

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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_036488.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AK000477, AK129763, CB241259
      Related
      ENST00000650131.3
    2. NR_137280.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC006948, AC007639
      Related
      ENST00000647953.1
    3. NR_137281.2 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC006948, AC007639
      Related
      ENST00000648623.2
    4. NR_152515.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      AC006948, AC007639
      Related
      ENST00000649793.2
    5. NR_152516.1 RNA Sequence

      Status: REVIEWED

      Source sequence(s)
      CB241259, KR778900
      Related
      ENST00000649350.1

    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_000017.11 Reference GRCh38.p14 Primary Assembly

      Range
      72403322..72592804 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060941.1 Alternate T2T-CHM13v2.0

      Range
      73276401..73465802 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)