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LOC110120635 VISTA enhancer hs261 [ Homo sapiens (human) ]

Gene ID: 110120635, updated on 10-Oct-2023

Summary

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Gene symbol
LOC110120635
Gene description
VISTA enhancer hs261
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 includes a conserved genomic element that can function as an enhancer. The major subregion can activate a Hsp68 promoter coupled to a LacZ reporter gene in embryonic midbrain of transgenic mice. An overlapping subregion marked by the H3K4me1 histone modification was also shown to be an active enhancer by ChIP-STARR-seq in naive human embryonic stem cells. [provided by RefSeq, Nov 2022]
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Genomic context

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See LOC110120635 in Genome Data Viewer
Location:
chromosome: 5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (3511815..3513285)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (3430511..3431981)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 5 NC_000005.9 (3511978..3513399)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1019 Neighboring gene long intergenic non-protein coding RNA 2162 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:3490824-3491324 Neighboring gene long intergenic non-protein coding RNA 1017 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:3510857-3511356 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:3511427-3511928 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:3518997-3519497 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:3520242-3520742 Neighboring gene Sharpr-MPRA regulatory region 3294 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:3598809-3599471 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:3599472-3600133 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:3600797-3601457 Neighboring gene uncharacterized LOC107986399 Neighboring gene iroquois homeobox 1

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

  • H3K4me1 hESC enhancer GRCh37_chr5:3511929-3512428

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_053262.2 

    Range
    101..1571
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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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    3511815..3513285
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    3430511..3431981
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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