U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC114827861 VISTA enhancer hs2543 [ Homo sapiens (human) ]

Gene ID: 114827861, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC114827861
Gene description
VISTA enhancer hs2543
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 dorsal root ganglion, forebrain, midbrain and neural tube 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]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
chromosome: 22
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 22 NC_000022.11 (17784911..17788092)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 22 NC_060946.1 (18452587..18455768)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 22 NC_000022.10 (18267677..18270858)

Chromosome 22 - NC_000022.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18629 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18630 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18631 Neighboring gene BH3 interacting domain death agonist Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18632 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13439 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13441 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13442 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13440 Neighboring gene microRNA 3198-1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18633 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18634 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18262368-18263275 Neighboring gene nonconserved acetylation island sequence 74 enhancer Neighboring gene ReSE screen-validated silencer GRCh37_chr22:18271287-18271499 Neighboring gene long intergenic non-protein coding RNA 528 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18277231-18277730 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18638 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18639 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18640 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18641 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr22:18286544-18287743 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18291439-18292235 Neighboring gene microtubule associated monooxygenase, calponin and LIM domain containing 3 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18298181-18298960 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18338757-18339640 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18341985-18342486 Neighboring gene uncharacterized LOC124905075 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18368270-18368770 Neighboring gene Sharpr-MPRA regulatory region 8921 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18642 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18643 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:18424525-18425300 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18435745-18436351 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18438647-18439148 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18439149-18439648 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr22:18443505-18444221 Neighboring gene Sharpr-MPRA regulatory region 15525 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr22:18456361-18456913 Neighboring gene ReSE screen-validated silencer GRCh37_chr22:18462205-18462583 Neighboring gene microRNA 648

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

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

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

Go to the top of the page Help

Other Names

  • ATAC-STARR-seq lymphoblastoid active region 18636
  • ATAC-STARR-seq lymphoblastoid active region 18637

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_065217.1 

    Range
    101..3282
    Download
    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_000022.11 Reference GRCh38.p14 Primary Assembly

    Range
    17784911..17788092
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060946.1 Alternate T2T-CHM13v2.0

    Range
    18452587..18455768
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases