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    LINC03125 long intergenic non-protein coding RNA 3125 [ Homo sapiens (human) ]

    Gene ID: 100505664, updated on 28-Oct-2024

    Summary

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    Official Symbol
    LINC03125provided by HGNC
    Official Full Name
    long intergenic non-protein coding RNA 3125provided by HGNC
    Primary source
    HGNC:HGNC:57012
    See related
    Ensembl:ENSG00000230387 AllianceGenome:HGNC:57012
    Gene type
    ncRNA
    RefSeq status
    MODEL
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Expression
    Biased expression in testis (RPKM 1.5), skin (RPKM 1.3) and 5 other tissues See more
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    Genomic context

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    See LINC03125 in Genome Data Viewer
    Location:
    20p11.21
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (23159640..23190307)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (23219032..23249699)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17627 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17628 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17629 Neighboring gene CD93 molecule Neighboring gene ReSE screen-validated silencer GRCh37_chr20:23097446-23097628 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17630 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr20:23117070-23118269 Neighboring gene long intergenic non-protein coding RNA 656 Neighboring gene Sharpr-MPRA regulatory region 14145 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:23128189-23129388 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:23130883-23131866 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12722 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17631 Neighboring gene RNA, 5S ribosomal pseudogene 478 Neighboring gene Sharpr-MPRA regulatory region 4869 Neighboring gene MPRA-validated peak4168 silencer Neighboring gene Sharpr-MPRA regulatory region 11415 Neighboring gene Sharpr-MPRA regulatory region 15236 Neighboring gene uncharacterized LOC105372571 Neighboring gene NXT1 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12723 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:23325274-23325494 Neighboring gene H3K27ac hESC enhancers GRCh37_chr20:23330429-23331301 and GRCh37_chr20:23331302-23332173 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17633 Neighboring gene nuclear transport factor 2 like export factor 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
    • 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. N7-Methylguanosine-Related lncRNAs: Integrated Analysis Associated With Prognosis and Progression in Clear Cell Renal Cell Carcinoma. Ming J, et al. Front Genet, 2022. PMID 35495133, Free PMC Article
    2. Complete sequencing and characterization of 21,243 full-length human cDNAs. Ota T, et al. Nat Genet, 2004 Jan. PMID 14702039

    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 (GRCh38)

    General gene information

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    Markers

    NCBI Reference Sequences (RefSeq)

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    NEW Try the new Transcript table

    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_000020.11 Reference GRCh38.p14 Primary Assembly

      Range
      23159640..23190307
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_937371.2 RNA Sequence

    2. XR_002958561.1 RNA Sequence

      Related
      ENST00000670920.1

    3. XR_937375.3 RNA Sequence

      Related
      ENST00000667919.1

    4. XR_002958565.2 RNA Sequence

      Related
      ENST00000656146.1

    5. XR_430281.3 RNA Sequence

    6. XR_001754548.1 RNA Sequence

    7. XR_937365.2 RNA Sequence

      Related
      ENST00000671163.1

    8. XR_002958563.1 RNA Sequence

      Related
      ENST00000720395.1

    9. XR_002958560.1 RNA Sequence

      Related
      ENST00000659548.1

    10. XR_002958566.1 RNA Sequence

      Related
      ENST00000658111.1

    11. XR_002958562.1 RNA Sequence

      Related
      ENST00000671352.1

    12. XR_002958564.1 RNA Sequence

      Related
      ENST00000656699.1

    13. XR_937368.2 RNA Sequence

      Related
      ENST00000666551.1

    14. XR_002958567.1 RNA Sequence

      Related
      ENST00000622708.2

    15. XR_937376.2 RNA Sequence

      Related
      ENST00000668880.2

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      23219032..23249699
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    RNA

    1. XR_007089871.1 RNA Sequence

    2. XR_007089876.1 RNA Sequence

    3. XR_007089877.1 RNA Sequence

    4. XR_007089878.1 RNA Sequence

    5. XR_007089868.1 RNA Sequence

    6. XR_007089875.1 RNA Sequence

    7. XR_007089866.1 RNA Sequence

    8. XR_007089870.1 RNA Sequence

    9. XR_007089865.1 RNA Sequence

    10. XR_007089874.1 RNA Sequence

    11. XR_007089867.1 RNA Sequence

    12. XR_007089873.1 RNA Sequence

    13. XR_007089864.1 RNA Sequence

    14. XR_007089869.1 RNA Sequence

    15. XR_007089872.1 RNA Sequence

    Nucleotide Protein
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