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LOC129660958 ReSE screen-validated silencer GRCh37_chr3:12684584-12684794 [ Homo sapiens (human) ]

Gene ID: 129660958, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129660958
Gene description
ReSE screen-validated silencer GRCh37_chr3:12684584-12684794
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 K562 erythroleukemia cells. [provided by RefSeq, Apr 2023]
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Genomic context

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See LOC129660958 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 (12643085..12643295)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (12641824..12642034)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (12684584..12684794)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene MKRN2 opposite strand Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14065 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12598813-12599336 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19445 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19446 Neighboring gene makorin ring finger protein 2 Neighboring gene MPRA-validated peak4543 silencer Neighboring gene Raf-1 proto-oncogene, serine/threonine kinase Neighboring gene small nucleolar RNA U13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19447 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12698025-12698668 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12704698-12705308 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12705309-12705920 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19449 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12711892-12712473 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12712474-12713054 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12715375-12716244 Neighboring gene cysteine rich protein 1 pseudogene 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12735645-12736146 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19450 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12779747-12780569 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19451 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14067 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19452 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14068 Neighboring gene transmembrane protein 40 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19453 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12800761-12801346 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14069

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_157995.1 

    Range
    101..311
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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
    12643085..12643295
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    12641824..12642034
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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