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LOC129663017 ReSE screen-validated silencer GRCh37_chr11:87957258-87957458 [ Homo sapiens (human) ]

Gene ID: 129663017, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129663017
Gene description
ReSE screen-validated silencer GRCh37_chr11:87957258-87957458
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 and phorbol 12-myristate 13-acetate-treated (for megakaryocytic differentiation) K562 erythroleukemia cells. [provided by RefSeq, Apr 2023]
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Genomic context

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See LOC129663017 in Genome Data Viewer
Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (88224090..88224290)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (88143094..88143294)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (87957258..87957458)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107984361 Neighboring gene NANOG hESC enhancer GRCh37_chr11:87550635-87551136 Neighboring gene MT-CYB pseudogene 41 Neighboring gene RAB38, member RAS oncogene family Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:87636982-87638181 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:87678230-87678751 Neighboring gene NANOG hESC enhancer GRCh37_chr11:87681659-87682160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5376 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5377 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5378 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr11:87979456-87980655 Neighboring gene microRNA 3166 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5379 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr11:88030550-88031243 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5380 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr11:88040649-88041604 Neighboring gene MPRA-validated peak1386 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5381 Neighboring gene Sharpr-MPRA regulatory region 1780 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5382 Neighboring gene uncharacterized LOC101929174 Neighboring gene CRISPRi-validated cis-regulatory element chr11.4755 Neighboring gene cathepsin C Neighboring gene glyceraldehyde 3 phosphate dehydrogenase pseudogene 70

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_160023.1 

    Range
    101..301
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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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    88224090..88224290
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    88143094..88143294
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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