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LOC110121197 VISTA enhancer hs1743 [ Homo sapiens (human) ]

Gene ID: 110121197, updated on 17-Sep-2024

Summary

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Gene symbol
LOC110121197
Gene description
VISTA enhancer hs1743
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 cranial nerve, forebrain, hindbrain, midbrain, neural tube and trigeminal V ganglion of transgenic mice. An overlapping subregion was also shown to be an active enhancer by ChIP-STARR-seq in primed human embryonic stem cells, where it associates with the NANOG transcription factor and is marked by the H3K27ac and H3K4me1 histone modifications. [provided by RefSeq, Nov 2022]
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Genomic context

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See LOC110121197 in Genome Data Viewer
Location:
chromosome: 9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (2240936..2242833)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (2243410..2245307)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (2240936..2242833)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene SWI/SNF related BAF chromatin remodeling complex subunit ATPase 2 Neighboring gene uncharacterized LOC107987043 Neighboring gene RNA, U2 small nuclear 25, pseudogene Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:2200432-2201008 Neighboring gene RNA, 7SL, cytoplasmic 592, pseudogene Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr9:2260567-2261766 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:2280415-2281039 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:2281040-2281664 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:2282916-2283540 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:2283541-2284165 Neighboring gene uncharacterized LOC105375955 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr9:2361801-2363000 Neighboring gene uncharacterized LOC101930053 Neighboring gene uncharacterized LOC105375956 Neighboring gene Sharpr-MPRA regulatory region 8982

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. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Barakat TS, et al. Cell Stem Cell, 2018 Aug 2. PMID 30033119, 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

  • NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:2241127-2242001

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_053814.1 

    Range
    101..1998
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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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    2240936..2242833
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    2243410..2245307
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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