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LOC110121340 VISTA enhancer hs1301 [ Homo sapiens (human) ]

Gene ID: 110121340, updated on 10-Oct-2023

Summary

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Gene symbol
LOC110121340
Gene description
VISTA enhancer hs1301
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 forebrain of transgenic mice. Two subregions were also shown to be active enhancers by ChIP-STARR-seq in human embryonic stem cells, where both are associated with the OCT4 and NANOG transcription factors. [provided by RefSeq, Nov 2022]
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Genomic context

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See LOC110121340 in Genome Data Viewer
Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (16401723..16404491)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (16499575..16502343)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (16423269..16426037)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105376572 Neighboring gene uncharacterized LOC124900593 Neighboring gene SRY-box transcription factor 6 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:16086747 Neighboring gene MPRA-validated peak1213 silencer Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:16133413 Neighboring gene MPRA-validated peak1214 silencer Neighboring gene VISTA enhancer hs1720 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:16199331 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:16200444 Neighboring gene melanoma risk locus-associated MPRA allelic enhancer 11:16210951 Neighboring gene VISTA enhancer hs883 Neighboring gene VISTA enhancer hs236 Neighboring gene VISTA enhancer hs717 Neighboring gene SOX6 proximal promoter region Neighboring gene aldo-keto reductase family 1 member B1 pseudogene 3 Neighboring gene RNA, 7SL, cytoplasmic 188, pseudogene

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

  • OCT4-NANOG hESC enhancer GRCh37_chr11:16424160-16424745
  • OCT4-NANOG hESC enhancer GRCh37_chr11:16424746-16425330

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_053954.1 

    Range
    101..2869
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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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    16401723..16404491
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    16499575..16502343
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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