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LOC127889232 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:45534013-45534926 [ Homo sapiens (human) ]

Gene ID: 127889232, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127889232
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:45534013-45534926
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 naive and primed human embryonic stem cells, where it is marked by the H3K27ac and H3K4me1 histone modifications. This locus also includes two 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, May 2023]
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Genomic context

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See LOC127889232 in Genome Data Viewer
Location:
chromosome: 18
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 18 NC_000018.10 (48007642..48008555)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 18 NC_060942.1 (48198566..48199479)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 18 NC_000018.9 (45534013..45534926)

Chromosome 18 - NC_000018.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904297 Neighboring gene uncharacterized LOC105372101 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr18:45494112-45494840 Neighboring gene H3K27ac hESC enhancer GRCh37_chr18:45499951-45500451 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr18:45529319-45530518 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:45580577-45581077 Neighboring gene zinc finger and BTB domain containing 7C Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr18:45605776-45606698 Neighboring gene Sharpr-MPRA regulatory region 9251 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr18:45654098-45654696 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:45665409-45665908 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9431 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:45698538-45699038 Neighboring gene ZBTB7C antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:45712074-45712592 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr18:45712593-45713110 Neighboring gene RNA, U6 small nuclear 708, pseudogene Neighboring gene ZBTB7C antisense RNA 2

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 9429
  • ATAC-STARR-seq lymphoblastoid silent region 9430

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_138773.1 

    Range
    101..1014
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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_000018.10 Reference GRCh38.p14 Primary Assembly

    Range
    48007642..48008555
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060942.1 Alternate T2T-CHM13v2.0

    Range
    48198566..48199479
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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