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LOC127821345 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63766149-63767086 [ Homo sapiens (human) ]

Gene ID: 127821345, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127821345
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63766149-63767086
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 includes an enhancer that was validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive human embryonic stem cells, where it is marked by the H3K27ac and H3K4me1 histone modifications. 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 LOC127821345 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 (63998677..63999647)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (63988380..63989350)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (63766149..63767119)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4880 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63744743-63745420 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63746097-63746774 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3453 Neighboring gene cytochrome c oxidase subunit 8A Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63764275-63765212 Neighboring gene H3K27ac-H3K4me1 hESC enhancers GRCh37_chr11:63767087-63768022 and GRCh37_chr11:63768035-63768542 Neighboring gene OTU deubiquitinase, ubiquitin aldehyde binding 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63775344-63775934 Neighboring gene mono-ADP ribosylhydrolase 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63789022-63789720 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63789721-63790419 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63791118-63791816 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63795215-63796016 Neighboring gene uncharacterized LOC124902685 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63803443-63804345 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63804346-63805247 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63815687-63816245 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63816558-63817058 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63820013-63820556 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63820557-63821100 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63821645-63822187 Neighboring gene fibronectin leucine rich transmembrane protein 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63826482-63827200 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3456 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:63836633-63837360 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:63840775-63840963 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63860723-63861393 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63861723-63862230 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:63877842-63878622

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 4881
  • ATAC-STARR-seq lymphoblastoid silent region 3454

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_122796.2 

    Range
    101..1071
    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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    63998677..63999647
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    63988380..63989350
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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