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LOC129661602 ReSE screen-validated silencer GRCh37_chr5:179278643-179278802 [ Homo sapiens (human) ]

Gene ID: 129661602, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129661602
Gene description
ReSE screen-validated silencer GRCh37_chr5:179278643-179278802
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 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 LOC129661602 in Genome Data Viewer
Location:
chromosome: 5
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (179851643..179851802)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (180406796..180406955)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (179278643..179278802)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:179233022-179233683 Neighboring gene alpha-1,3-mannosyl-glycoprotein 4-beta-N-acetylglucosaminyltransferase B Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16743 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16744 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:179238425-179239203 Neighboring gene sequestosome 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16745 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16746 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr5:179245687-179246886 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:179247407-179248116 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16749 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16750 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179250225-179250763 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179250764-179251301 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179254671-179255475 Neighboring gene Sharpr-MPRA regulatory region 15558 Neighboring gene MRN complex interacting protein Neighboring gene RN7SK pseudogene 150 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23765 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16751 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23766 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16752 Neighboring gene MRNIP divergent transcript Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179294147-179294673 Neighboring gene TBC1 domain family member 9B Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:179302124-179303323 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179320466-179320966 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179320967-179321467 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179329571-179330070 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:179333851-179334628 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16755 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16756

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_158638.1 

    Range
    101..260
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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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    179851643..179851802
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_016107298.1 Reference GRCh38.p14 PATCHES

    Range
    617203..617362
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    180406796..180406955
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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