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LOC120766158 negCOR silencer S4 [ Homo sapiens (human) ]

Gene ID: 120766158, updated on 10-Oct-2023

Summary

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Gene symbol
LOC120766158
Gene description
negCOR silencer S4
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 region was predicted to be a silencer based on a correlation between histone H3 lysine 27 tri-methylation overlapping a DNase I hypersensitive site (H3K27me3-DHS) and negative regulation of nearby gene expression. It was experimentally validated as a negatively correlated (negCOR) silencer that significantly represses activity of an enhancer-driven reporter gene in K562 erythroleukemia cells. [provided by RefSeq, Mar 2021]
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Genomic context

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Location:
1q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (178501647..178502091)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (177856370..177856814)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (178470782..178471226)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene RAS protein activator like 2 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:178386599-178387798 Neighboring gene ribosomal protein S14 pseudogene 2 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:178452792-178452968 Neighboring gene MPRA-validated peak476 silencer Neighboring gene uncharacterized LOC101928866 Neighboring gene C-type lectin domain containing 20A Neighboring gene uncharacterized LOC105371631 Neighboring gene testis expressed 35

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. Identification of human silencers by correlating cross-tissue epigenetic profiles and gene expression. Huang D, et al. Genome Res, 2019 Apr. PMID 30886051, 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 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_073728.1 

    Range
    101..545
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    GenBank, FASTA, Sequence Viewer (Graphics)

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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    178501647..178502091
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    177856370..177856814
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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