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LOC129660741 ReSE screen-validated silencer GRCh37_chr2:85408515-85408652 [ Homo sapiens (human) ]

Gene ID: 129660741, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129660741
Gene description
ReSE screen-validated silencer GRCh37_chr2:85408515-85408652
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 both phorbol 12-myristate 13-acetate-treated (for megakaryocytic differentiation) and untreated K562 erythroleukemia cells. [provided by RefSeq, Apr 2023]
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Genomic context

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See LOC129660741 in Genome Data Viewer
Location:
chromosome: 2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (85181392..85181529)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (85183304..85183441)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (85408515..85408652)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1964 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:85304907-85305408 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:85305409-85305908 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr2:85346954-85347553 Neighboring gene LSM3 homolog, U6 small nuclear RNA and mRNA degradation associated pseudogene 3 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11694 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:85360550-85361124 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:85361700-85362274 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr2:85362275-85362848 Neighboring gene transcription factor 7 like 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:85386601-85387191 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:85390033-85390532 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:85408761-85409408 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:85416914-85417415 Neighboring gene TCF7L1 intronic transcript 1 Neighboring gene RNA, U6 small nuclear 674, 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_157778.1 

    Range
    101..238
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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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    85181392..85181529
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_025791763.1 Reference GRCh38.p14 PATCHES

    Range
    107578..107715
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    85183304..85183441
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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