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LOC127459361 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:42948529-42949434 [ Homo sapiens (human) ]

Gene ID: 127459361, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127459361
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:42948529-42949434
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 and H3K4me1 histone modifications. This locus also includes an accessible chromatin subregion that was validated as a silencer based on its 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 LOC127459361 in Genome Data Viewer
Location:
chromosome: 8
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (43093386..43094291)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (43362318..43363223)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (42948529..42949434)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene ring finger protein 170 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19160 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19161 Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:42774215-42774934 Neighboring gene hook microtubule tethering protein 3 Neighboring gene MPRA-validated peak7007 silencer Neighboring gene H3K27ac hESC enhancer GRCh37_chr8:42888473-42889024 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27320 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19162 Neighboring gene RNA, U1 small nuclear 124, pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27321 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:42947622-42948528 Neighboring gene farnesyltransferase, CAAX box, subunit alpha Neighboring gene NANOG hESC enhancer GRCh37_chr8:42971985-42972543 Neighboring gene protein O-mannose kinase Neighboring gene Sharpr-MPRA regulatory region 5985 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19164 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19165 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19166 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27322 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27323 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 27324 Neighboring gene heparan-alpha-glucosaminide N-acetyltransferase Neighboring gene RNY5 pseudogene 6 Neighboring gene vomeronasal 1 receptor 45 pseudogene

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 19163

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_114130.1 

    Range
    101..1006
    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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    43093386..43094291
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    43362318..43363223
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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