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    LINC00635 long intergenic non-protein coding RNA 635 [ Homo sapiens (human) ]

    Gene ID: 151658, updated on 10-Oct-2023

    Summary

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    Official Symbol
    LINC00635provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 635provided by HGNC
    Primary source
    HGNC:HGNC:27184
    See related
    Ensembl:ENSG00000241469 AllianceGenome:HGNC:27184
    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 9.2) See more
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    Genomic context

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    Location:
    3q13.12
    Exon count:
    12
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (107841662..107878068, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (110561411..110597815, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (107560509..107596915, complement)

    Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20202 Neighboring gene long intergenic non-protein coding RNA 1990 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:107188782-107189520 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:107189521-107190259 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr3:107195157-107195742 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20203 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14587 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14588 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14589 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20204 Neighboring gene BBX high mobility group box domain containing Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr3:107317361-107318183 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:107319851-107320351 Neighboring gene MPRA-validated peak4758 silencer Neighboring gene long intergenic non-protein coding RNA 636 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:107646067-107646688 Neighboring gene MPRA-validated peak4759 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:107700178-107700678 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:107700679-107701179 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20207 Neighboring gene Sharpr-MPRA regulatory region 1116 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:107722923-107723084 Neighboring gene uncharacterized LOC124906266

    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 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_015414.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (2) represents the longer transcript.
      Source sequence(s)
      BC045586, DB527077
      Related
      ENST00000464359.7

    2. NR_024276.1 RNA Sequence

      Status: VALIDATED

      Description
      Transcript Variant: This variant (1) lacks several alternate exons and an alternate exonic segment compared to variant 2.
      Source sequence(s)
      BC039365
      Related
      ENST00000488852.5

    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
      107841662..107878068 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      110561411..110597815 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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