U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination
    • Showing Current items.

    LOC130065705 ATAC-STARR-seq lymphoblastoid silent region 12828 [ Homo sapiens (human) ]

    Gene ID: 130065705, updated on 12-Sep-2024

    Summary

    Gene symbol
    LOC130065705
    Gene description
    ATAC-STARR-seq lymphoblastoid silent region 12828
    Gene type
    biological region
    Feature type(s)
    regulatory: silencer
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Summary
    This genomic sequence represents an accessible chromatin region that was validated as a silencer based on its ability to repress an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) massively parallel reporter assay (MPRA) in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See LOC130065705 in Genome Data Viewer
    Location:
    chromosome: 20
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (33993552..33993661)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (35719903..35720012)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (32581358..32581467)

    Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene ReSE screen-validated silencer GRCh37_chr20:32507904-32508103 Neighboring gene tropomyosin 3 pseudogene 2 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:32521004-32521504 Neighboring gene phosphatidylinositol glycan anchor biosynthesis class P pseudogene 3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr20:32580634-32581160 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12829 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12830 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12831 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:32586597-32587097 Neighboring gene RALY antisense RNA 1 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr20:32598140-32598817 Neighboring gene RALY heterogeneous nuclear ribonucleoprotein Neighboring gene Sharpr-MPRA regulatory region 13564 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr20:32633616-32634424 Neighboring gene microRNA 4755 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr20:32664206-32665405 Neighboring gene eukaryotic translation initiation factor 2 subunit beta Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:32698990-32699652 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:32699653-32700314

    Genomic regions, transcripts, and products

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    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.

    Genomic

    1. NG_200122.1 

      Range
      101..210
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    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
      33993552..33993661
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060944.1 Alternate T2T-CHM13v2.0

      Range
      35719903..35720012
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)