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    LINC00690 long intergenic non-protein coding RNA 690 [ Homo sapiens (human) ]

    Gene ID: 100996597, updated on 17-Sep-2024

    Summary

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    Official Symbol
    LINC00690provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 690provided by HGNC
    Primary source
    HGNC:HGNC:44503
    See related
    Ensembl:ENSG00000233570 AllianceGenome:HGNC:44503
    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
    Restricted expression toward testis (RPKM 3.2) See more
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    Genomic context

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    See LINC00690 in Genome Data Viewer
    Location:
    3p24.3
    Exon count:
    3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (16536318..16541373)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (16537452..16542498)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (16577825..16582880)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene raftlin, lipid raft linker 1 Neighboring gene uncharacterized LOC124906220 Neighboring gene NANOG hESC enhancer GRCh37_chr3:16497386-16497905 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19544 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19545 Neighboring gene uncharacterized LOC124906219 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:16524187-16525039 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19546 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19547 Neighboring gene NANOG hESC enhancer GRCh37_chr3:16539919-16540420 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19548 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19549 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19550 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19551 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14117 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14118 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:16556589-16556764 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14119 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:16557992-16558492 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:16558493-16558993 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19552 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:16577170-16577365 Neighboring gene deleted in azoospermia like Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:16699444-16700249 Neighboring gene Sharpr-MPRA regulatory region 448 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:16712625-16713593 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:16717988-16718488 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:16718489-16718989 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:16728537-16729494 Neighboring gene chromodomain Y-like protein Neighboring gene CDYL pseudogene 1

    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. 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

    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

    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_103843.1 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      BC034913, BX100558
      Related
      ENST00000429949.2

    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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      16536318..16541373
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      16537452..16542498
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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