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LOC120766157 negCOR silencer S3 [ Homo sapiens (human) ]

Gene ID: 120766157, updated on 10-Oct-2023

Summary

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Gene symbol
LOC120766157
Gene description
negCOR silencer S3
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:
1p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (26966731..26967431)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (26804784..26805484)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (27293222..27293922)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene nuclear distribution C, dynein complex regulator Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:27241933-27242433 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:27245085-27245285 Neighboring gene nuclear receptor subfamily 0 group B member 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 531 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:27248501-27249042 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 497 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 498 Neighboring gene Sharpr-MPRA regulatory region 10310 Neighboring gene keratinocyte differentiation factor 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27286397-27287079 Neighboring gene Sharpr-MPRA regulatory region 5798 Neighboring gene ribosomal protein L12 pseudogene 13 Neighboring gene ribosomal protein L32 pseudogene 6

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_073727.1 

    Range
    101..801
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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
    26966731..26967431
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    26804784..26805484
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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