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LOC114827834 VISTA enhancer hs2502 [ Homo sapiens (human) ]

Gene ID: 114827834, updated on 10-Oct-2023

Summary

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Gene symbol
LOC114827834
Gene description
VISTA enhancer hs2502
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This locus represents a conserved genomic element that can function as an enhancer. It can activate a Hsp68 promoter coupled to a LacZ reporter gene in embryonic heart of transgenic mice. A subregion also 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. That subregion 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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Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (185564628..185571478)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (188905425..188912275)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (186485782..186492632)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15856 Neighboring gene uncharacterized LOC105377590 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr4:186401399-186401900 Neighboring gene coiled-coil domain containing 110 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:186423455-186423954 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:186434842-186436041 Neighboring gene PDZ and LIM domain 3 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:186480278-186481124 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:186481125-186481969 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:186508176-186509375 Neighboring gene SORBS2 antisense RNA 1 Neighboring gene sorbin and SH3 domain containing 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:186559524-186560163 Neighboring gene Sharpr-MPRA regulatory region 2405 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:186633271-186633806 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:186650535-186650732 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:186658253-186658822 Neighboring gene Sharpr-MPRA regulatory region 123 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:186717334-186717850 Neighboring gene OCT4-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:186717851-186718366 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:186742039-186742866 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:186760070-186761269 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:186784850-186784952 Neighboring gene uncharacterized LOC101928929

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. VISTA Enhancer Browser--a database of tissue-specific human enhancers. Visel A, et al. Nucleic Acids Res, 2007 Jan. PMID 17130149, Free PMC Article
  2. 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 variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • ReSE screen-validated silencer GRCh37_chr4:186491515-186491692

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_065190.1 

    Range
    101..6951
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    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    185564628..185571478
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    188905425..188912275
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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