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LOC127272843 H3K27ac-H3K4me1 hESC enhancers GRCh37_chr2:25263953-25264902 and GRCh37_chr2:25264903-25265851 [ Homo sapiens (human) ]

Gene ID: 127272843, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127272843
Gene description
H3K27ac-H3K4me1 hESC enhancers GRCh37_chr2:25263953-25264902 and GRCh37_chr2:25264903-25265851
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 two enhancers that were validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive human embryonic stem cells, where they are marked by the H3K27ac and H3K4me1 histone modifications. This locus also includes three accessible chromatin subregions that were validated as silencers based on their ability to 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, Jun 2023]
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Genomic context

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See LOC127272843 in Genome Data Viewer
Location:
chromosome: 2
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (25041084..25043009)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (25075510..25077445)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (25263953..25265878)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene DnaJ heat shock protein family (Hsp40) member C27 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:25194318-25194836 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:25194837-25195355 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:25195356-25195873 Neighboring gene DNAJC27 antisense RNA 1 Neighboring gene ribosomal protein S13 pseudogene 5 Neighboring gene H3K27ac hESC enhancer GRCh37_chr2:25254365-25254864 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11243 Neighboring gene EFR3 homolog B Neighboring gene RNA, 7SL, cytoplasmic 856, pseudogene Neighboring gene ReSE screen-validated silencer GRCh37_chr2:25293144-25293286 Neighboring gene SUCLA2 pseudogene 3

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 silent region 11240
  • ATAC-STARR-seq lymphoblastoid silent region 11241
  • ATAC-STARR-seq lymphoblastoid silent region 11242
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:25263953-25264902
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:25264903-25265851

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_094694.2 

    Range
    101..2026
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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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    25041084..25043009
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    25075510..25077445
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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