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LOC129661578 ReSE screen-validated silencer GRCh37_chr5:172194940-172195132 [ Homo sapiens (human) ]

Gene ID: 129661578, updated on 12-Sep-2024

Summary

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Gene symbol
LOC129661578
Gene description
ReSE screen-validated silencer GRCh37_chr5:172194940-172195132
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 LOC129661578 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 (172767937..172768129)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (173308052..173308244)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (172194940..172195132)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene neuralized E3 ubiquitin protein ligase 1B Neighboring gene uncharacterized LOC107986479 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16624 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23640 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23641 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172139792-172140399 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172141615-172142220 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172153656-172154156 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172170835-172171336 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172171337-172171836 Neighboring gene heart enhancer 25 Neighboring gene uncharacterized LOC101928093 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23642 Neighboring gene VISTA enhancer hs1828 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16625 Neighboring gene uncharacterized LOC105377730 Neighboring gene cyclin Q pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23645 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172214701-172215202 Neighboring gene dual specificity phosphatase 1 Neighboring gene CRISPRi-validated cis-regulatory element chr5.4451 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172232818-172233634 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr5:172233916-172235115 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172246893-172247394 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172250515-172251016 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:172251017-172251516 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16627 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16628 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16629 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:172262000-172262992 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:172262993-172263984 Neighboring gene uncharacterized LOC124901135 Neighboring gene endoplasmic reticulum-golgi intermediate compartment 1

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_158614.1 

    Range
    101..293
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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
    172767937..172768129
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    173308052..173308244
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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