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LOC114827823 VISTA enhancer hs1927 [ Homo sapiens (human) ]

Gene ID: 114827823, updated on 10-Oct-2023

Summary

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Gene symbol
LOC114827823
Gene description
VISTA enhancer hs1927
Gene type
biological region
Feature type(s)
regulatory: enhancer
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. This locus also includes two accessible chromatin subregions that were validated as enhancers based on their ability to activate an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) massively parallel reporter assay (MPRA) in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

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Location:
chromosome: 8
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (22971203..22975837)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (23246171..23250805)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (22828716..22833350)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene phosphatidylethanolamine binding protein 4 Neighboring gene uncharacterized LOC101929237 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27097 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:22744265-22744765 Neighboring gene uncharacterized LOC124901907 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:22760306-22760493 Neighboring gene Sharpr-MPRA regulatory region 3596 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:22769137-22769908 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:22769909-22770680 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:22777059-22777987 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:22809645-22810276 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:22810277-22810907 Neighboring gene uncharacterized LOC107984124 Neighboring gene NANOG hESC enhancer GRCh37_chr8:22814761-22815262 Neighboring gene Rho related BTB domain containing 2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27100 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:22845205-22845961 Neighboring gene RNA, 7SL, cytoplasmic 303, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19017 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19018 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19019 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:22861268-22861793 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:22861794-22862318 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr8:22866186-22866771 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:22871840-22872604 Neighboring gene ReSE screen-validated silencer GRCh37_chr8:22876025-22876192 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:22876488-22877052 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27102 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:22877053-22877615 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:22885758-22886258 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:22886259-22886759 Neighboring gene TNF receptor superfamily member 10b Neighboring gene Sharpr-MPRA regulatory region 6582 Neighboring gene TNFRSF10B antisense RNA 1 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:22921484-22922683 Neighboring gene TNFRSF10B 5' regulatory region

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. ATAC-STARR-seq reveals transcription factor-bound activators and silencers across the chromatin accessible human genome. Hansen TJ, et al. Genome Res, 2022 Jul 20. PMID 35858748, 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

  • ATAC-STARR-seq lymphoblastoid active region 27098
  • ATAC-STARR-seq lymphoblastoid active region 27099

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_065179.1 

    Range
    101..4735
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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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    22971203..22975837
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    23246171..23250805
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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