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LOC129660957 ReSE screen-validated silencer GRCh37_chr3:12348453-12348660 [ Homo sapiens (human) ]

Gene ID: 129660957, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129660957
Gene description
ReSE screen-validated silencer GRCh37_chr3:12348453-12348660
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 LOC129660957 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 (12306954..12307161)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (12305137..12305349)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (12348453..12348660)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene synapsin II Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14064 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr3:12219651-12220850 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19436 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19437 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19438 Neighboring gene MT-CO1 pseudogene 5 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12265535-12266263 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12328552-12329130 Neighboring gene glutathione S-transferase mu 5 pseudogene 1 Neighboring gene peroxisome proliferator activated receptor gamma Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr3:12386163-12387362 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19439 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19440 Neighboring gene PPARG eExon liver enhancer Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr3:12486052-12487251 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19441 Neighboring gene tRNA splicing endonuclease subunit 2 Neighboring gene RNA, 5S ribosomal pseudogene 123 Neighboring gene RNA, U6 small nuclear 377, pseudogene

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_157994.1 

    Range
    101..308
    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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    12306954..12307161
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    12305137..12305349
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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