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    LINC02888 long intergenic non-protein coding RNA 2888 [ Homo sapiens (human) ]

    Gene ID: 102659288, updated on 10-Oct-2023

    Summary

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    Official Symbol
    LINC02888provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 2888provided by HGNC
    Primary source
    HGNC:HGNC:53765
    See related
    AllianceGenome:HGNC:53765
    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
    KCCAT333
    Expression
    Biased expression in urinary bladder (RPKM 13.2) and endometrium (RPKM 0.7) See more
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    Genomic context

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    See LINC02888 in Genome Data Viewer
    Location:
    7p21.1
    Exon count:
    4
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (17374917..17467256)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (17504663..17596996)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (17414541..17506880)

    Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101927609 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17983 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17984 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17985 Neighboring gene uncharacterized LOC105375171 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr7:17411084-17412283 Neighboring gene aryl hydrocarbon receptor Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr7:17445039-17446238 Neighboring gene uncharacterized LOC105375172 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17986 Neighboring gene long intergenic non-protein coding RNA 2889 Neighboring gene Sharpr-MPRA regulatory region 7324 Neighboring gene NANOG hESC enhancer GRCh37_chr7:17638482-17638983 Neighboring gene NANOG hESC enhancer GRCh37_chr7:17702244-17702762 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25675 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25676 Neighboring gene Sharpr-MPRA regulatory region 6645 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:17864406-17864592 Neighboring gene sorting nexin 13 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:17960890-17961390 Neighboring gene MRM3 pseudogene 2

    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. Generation and analysis of 280,000 human expressed sequence tags. Hillier LD, et al. Genome Res, 1996 Sep. PMID 8889549
    2. Identification of intrahepatic cholangiocarcinoma related genes by comparison with normal liver tissues using expressed sequence tags. Wang AG, et al. Biochem Biophys Res Commun, 2006 Jul 7. PMID 16712791
    3. Toward a complete human genome sequence. Sanger Center, et al. Genome Res, 1998 Nov. PMID 9847074
    4. 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

    General gene information

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    Other Names

    • renal clear cell carcinoma-associated transcript 333

    Clone Names

    • AC019117.1

    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_110014.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) represents the longer transcript.
      Source sequence(s)
      AA165050, AI874224, BX114378, CB134096, CB306776

    2. NR_110015.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) lacks an alternate internal exon, compared to variant 1.
      Source sequence(s)
      AA165050, AI874224, BX114378, CB134096, CB306776

    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_000007.14 Reference GRCh38.p14 Primary Assembly

      Range
      17374917..17467256
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060931.1 Alternate T2T-CHM13v2.0

      Range
      17504663..17596996
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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