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LOC127408943 H3K27ac hESC enhancer GRCh37_chr7:39989224-39990142 [ Homo sapiens (human) ]

Gene ID: 127408943, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127408943
Gene description
H3K27ac hESC enhancer GRCh37_chr7:39989224-39990142
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic region was validated as an active enhancer by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in primed human embryonic stem cells, where it is marked by the H3K27ac histone modification. This locus also includes two accessible chromatin subregions, one of which was validated as an enhancer and the other as a silencer based on their ability to activate or repress an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

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See LOC127408943 in Genome Data Viewer
Location:
chromosome: 7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (39949625..39950543)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (40107125..40108043)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (39989224..39990142)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101928688 Neighboring gene RNA, 7SL, cytoplasmic 496, pseudogene Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:39954013-39954514 Neighboring gene Sharpr-MPRA regulatory region 5390 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25884 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:39988304-39989223 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18115 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18116 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:39991063-39991981 Neighboring gene CDK13 divergent transcript Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:40015128-40015628 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr7:40017861-40018605 Neighboring gene cyclin dependent kinase 13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25889 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:40095303-40095542 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18117 Neighboring gene HIG1 hypoxia inducible domain family member 1A pseudogene 7 Neighboring gene M-phase specific PLK1 interacting protein

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. ATAC-STARR-seq reveals transcription factor-bound activators and silencers within chromatin-accessible regions of the human genome. Hansen TJ, et al. Genome Res, 2022 Aug 25. PMID 35858748, 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 Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid active region 25888
  • ATAC-STARR-seq lymphoblastoid silent region 18114

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_110909.1 

    Range
    101..1019
    Download
    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    39949625..39950543
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    40107125..40108043
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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