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    LINC00885 long intergenic non-protein coding RNA 885 [ Homo sapiens (human) ]

    Gene ID: 401109, updated on 17-Jun-2024

    Summary

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    Official Symbol
    LINC00885provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 885provided by HGNC
    Primary source
    HGNC:HGNC:48571
    See related
    Ensembl:ENSG00000224652 AllianceGenome:HGNC:48571
    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 skin (RPKM 1.1), placenta (RPKM 0.9) and 7 other tissues See more
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    Genomic context

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    See LINC00885 in Genome Data Viewer
    Location:
    3q29
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (196142636..196160890)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (198862142..198880430)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (195869507..195887761)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195782376-195782901 Neighboring gene ARL8B pseudogene 1 Neighboring gene NANOG hESC enhancer GRCh37_chr3:195784876-195785377 Neighboring gene transferrin receptor Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15051 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195807213-195807712 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15052 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15053 Neighboring gene RNA, U7 small nuclear 18 pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr3:195812346-195812518 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:195819312-195819500 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21065 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15054 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:195840246-195840363 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15055 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:195853055-195853556 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:195861292-195861451 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195862621-195863421 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21066 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21067 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21068 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21069 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15056 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21070 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21071 Neighboring gene CRISPRi-validated cis-regulatory element chr3.5812 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21072 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195913396-195914015 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195914016-195914634 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:195917731-195918349 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195919335-195919998 Neighboring gene CRISPRi-validated cis-regulatory element chr3.5817 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21076 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21077 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195924959-195925904 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:195929545-195930080 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195930123-195930624 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:195930625-195931124 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15057 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15058 Neighboring gene zinc finger DHHC-type palmitoyltransferase 19 Neighboring gene uncharacterized LOC124909479 Neighboring gene uncharacterized LOC105374304

    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. LINC00885 promotes cervical cancer progression through sponging miR-3150b-3p and upregulating BAZ2A. Liu Y, et al. Biol Direct, 2022 Jan 10. PMID 35012615, Free PMC Article
    2. LINC00885 a Novel Oncogenic Long Non-Coding RNA Associated with Early Stage Breast Cancer Progression. Abba MC, et al. Int J Mol Sci, 2020 Oct 8. PMID 33049922, Free PMC Article
    3. LncRNA LINC00885 promotes bladder cancer progression by targeting the miR-98-5p/PBX3 axis. Xia Z, et al. Cell Mol Biol (Noisy-le-grand), 2023 Mar 31. PMID 37300672
    4. 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. Long noncoding RNA LINC00885 upregulates NCK1 to promote cell viability and migration of triple-negative breast cancer cells through sponging miR-654-3p.
      Title: Long noncoding RNA LINC00885 upregulates NCK1 to promote cell viability and migration of triple-negative breast cancer cells through sponging miR-654-3p.
    2. LncRNA LINC00885 promotes bladder cancer progression by targeting the miR-98-5p/PBX3 axis.
      Title: LncRNA LINC00885 promotes bladder cancer progression by targeting the miR-98-5p/PBX3 axis.
    3. LINC00885 promotes cervical cancer progression through sponging miR-3150b-3p and upregulating BAZ2A.
      Title: LINC00885 promotes cervical cancer progression through sponging miR-3150b-3p and upregulating BAZ2A.
    4. LINC00885 a Novel Oncogenic Long Non-Coding RNA Associated with Early Stage Breast Cancer Progression.
      Title: LINC00885 a Novel Oncogenic Long Non-Coding RNA Associated with Early Stage Breast Cancer Progression.
    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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    Clone Names

    • FLJ25996, AC139666.1

    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_034088.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC139666
      Related
      ENST00000457079.3

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      196142636..196160890
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      198862142..198880430
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Suppressed Reference Sequence(s)

    The following Reference Sequences have been suppressed. Explain

    1. NM_001001699.1: Suppressed sequence

      Description
      NM_001001699.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
    Nucleotide Protein
    Heading Accession and Version

    Gene LinkOut

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