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LOC129660956 ReSE screen-validated silencer GRCh37_chr3:12003099-12003242 [ Homo sapiens (human) ]

Gene ID: 129660956, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129660956
Gene description
ReSE screen-validated silencer GRCh37_chr3:12003099-12003242
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 LOC129660956 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 (11961625..11961768)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (11959577..11959720)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (12003099..12003242)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene MARK2 pseudogene 14 Neighboring gene RNA, 7SL, cytoplasmic 147, pseudogene Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12046587-12047087 Neighboring gene synapsin II Neighboring gene Sharpr-MPRA regulatory region 7614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12100621-12101122 Neighboring gene actin gamma 1 pseudogene 12 Neighboring gene Sharpr-MPRA regulatory region 15359 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19435 Neighboring gene TIMP metallopeptidase inhibitor 4

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_157993.1 

    Range
    101..244
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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
    11961625..11961768
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NW_003871060.2 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    24730..24873 complement
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    11959577..11959720
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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