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LOC127821265 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62323477-62324282 [ Homo sapiens (human) ]

Gene ID: 127821265, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127821265
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62323477-62324282
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 genomic region includes an enhancer that was validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive and primed human embryonic stem cells, where it is marked by the H3K27ac and H3K4me1 histone modifications. This locus also includes three accessible chromatin subregions that were validated as enhancers based on their ability to activate 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, Jun 2023]
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Genomic context

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See LOC127821265 in Genome Data Viewer
Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (62556005..62556842)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (62545455..62546292)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (62323477..62324314)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102723765 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4815 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4816 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62193633-62194180 Neighboring gene secretoglobin family 1A member 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:62201545-62202046 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:62202047-62202546 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4817 Neighboring gene Sharpr-MPRA regulatory region 7741 Neighboring gene AHNAK nucleoprotein Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:62273135-62273882 Neighboring gene Sharpr-MPRA regulatory region 266 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr11:62302796-62303995 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:62306574-62307176 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:62307177-62307777 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4818 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4819 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62312785-62313295 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62313296-62313806 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3414 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62314385-62314915 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3415 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62318643-62319448 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62319449-62320254 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3416 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62324283-62325086 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:62325319-62325834 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:62326954-62327496 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4824 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62329123-62329665 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4825 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62341487-62342448 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62342449-62343410 Neighboring gene eukaryotic translation elongation factor 1 gamma Neighboring gene microRNA 6747 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:62358805-62359500 Neighboring gene terminal uridylyl transferase 1, U6 snRNA-specific

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 4820
  • ATAC-STARR-seq lymphoblastoid active region 4821
  • ATAC-STARR-seq lymphoblastoid active region 4822

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_122717.2 

    Range
    101..938
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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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    62556005..62556842
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    62545455..62546292
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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