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LOC110121441 VISTA enhancer hs1754 [ Homo sapiens (human) ]

Gene ID: 110121441, updated on 10-Oct-2023

Summary

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Gene symbol
LOC110121441
Gene description
VISTA enhancer hs1754
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. Two subregions were also shown to be active enhancers by ChIP-STARR-seq in human embryonic stem cells, where both are marked by the H3K27ac and H3K4me1 histone modifications and one is additionally associated with the NANOG transcription factor. [provided by RefSeq, Nov 2022]
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Genomic context

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Location:
chromosome: 19
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (11141255..11144027)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (11268255..11271024)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (11251931..11254703)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:11200393-11200988 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:11200989-11201582 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr19:11202176-11203375 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr19:11205098-11206297 Neighboring gene LDLR antisense RNA 1 Neighboring gene low density lipoprotein receptor Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:11212882-11213520 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:11215560-11216060 Neighboring gene microRNA 6886 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10101 Neighboring gene SPC24 component of NDC80 kinetochore complex Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:11276922-11277422 Neighboring gene KN motif and ankyrin repeat domains 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:11300095-11300596 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:11300597-11301096 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10102 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 10103

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

  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:11252228-11253171
  • NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:11253172-11254114

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_054054.1 

    Range
    101..2873
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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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    11141255..11144027
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    11268255..11271024
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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