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    LINC00955 long intergenic non-protein coding RNA 955 [ Homo sapiens (human) ]

    Gene ID: 285492, updated on 10-Oct-2023

    Summary

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    Official Symbol
    LINC00955provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 955provided by HGNC
    Primary source
    HGNC:HGNC:26644
    See related
    AllianceGenome:HGNC:26644
    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
    Biased expression in duodenum (RPKM 2.8), small intestine (RPKM 2.0) and 1 other tissue See more
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    Genomic context

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    Location:
    4p16.3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (3576869..3590985)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (3575872..3589986)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (3578596..3592712)

    Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene MED14-independent group 3 enhancer GRCh37_chr4:3510576-3511775 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:3516456-3517655 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3517921-3518540 Neighboring gene LDL receptor related protein associated protein 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3528991-3529881 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3529882-3530771 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15207 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21225 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15208 Neighboring gene uncharacterized LOC124900650 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:3565549-3566194 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:3566195-3566840 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:3566841-3567484 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:3588685-3589343 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3589864-3590364 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3597341-3597842 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3598892-3599392 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3599393-3599893 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3601169-3601670 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3601671-3602170 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3602861-3603362 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3615589-3616204 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3632899-3633898 Neighboring gene uncharacterized LOC112268461 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:3642537-3642720 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:3644777-3645308 Neighboring gene uncharacterized LOC105374357

    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. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039
    2. 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. LINC00955 suppresses colorectal cancer growth by acting as a molecular scaffold of TRIM25 and Sp1 to Inhibit DNMT3B-mediated methylation of the PHIP promoter.
      Title: LINC00955 suppresses colorectal cancer growth by acting as a molecular scaffold of TRIM25 and Sp1 to Inhibit DNMT3B-mediated methylation of the PHIP promoter.
    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

    • FLJ35424

    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_040045.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AK092743, AL121796, AX747702, BC131584

    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_000004.12 Reference GRCh38.p14 Primary Assembly

      Range
      3576869..3590985
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060928.1 Alternate T2T-CHM13v2.0

      Range
      3575872..3589986
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_173661.1: Suppressed sequence

      Description
      NM_173661.1: This RefSeq was permanently suppressed because currently there is insufficient support for the transcript and the protein.
    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.

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