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    LOC129661194 ReSE screen-validated silencer GRCh37_chr3:195861292-195861451 [ Homo sapiens (human) ]

    Gene ID: 129661194, updated on 12-Sep-2024

    Summary

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    Gene symbol
    LOC129661194
    Gene description
    ReSE screen-validated silencer GRCh37_chr3:195861292-195861451
    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 used in a lentiviral ReSE (repressive ability of silencer elements) screen that assays for cell survival based on transcriptional repression of an apoptosis-inducing fusion protein. This region was identified as a functional silencer in HepG2 liver carcinoma cells. [provided by RefSeq, Apr 2023]
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    Genomic context

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    See LOC129661194 in Genome Data Viewer
    Location:
    chromosome: 3
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (196134421..196134580)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (198853926..198854085)
    RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (195861292..195861451)

    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 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 long intergenic non-protein coding RNA 885 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

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Systematic identification of silencers in human cells. Pang B, et al. Nat Genet, 2020 Mar. PMID 32094911, 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 Variation Viewer (GRCh37.p13)

    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.

    Genomic

    1. NG_158231.1 

      Range
      101..260
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      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_000003.12 Reference GRCh38.p14 Primary Assembly

      Range
      196134421..196134580
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060927.1 Alternate T2T-CHM13v2.0

      Range
      198853926..198854085
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)
    Nucleotide Protein
    Heading Accession and Version

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