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LOC112272614 H3K27ac-H3K4me1 hESC enhancers GRCh37_chr15:73988946-73989458 and GRCh37_chr15:73989459-73989969 [ Homo sapiens (human) ]

Gene ID: 112272614, updated on 10-Oct-2023

Summary

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Gene symbol
LOC112272614
Gene description
H3K27ac-H3K4me1 hESC enhancers GRCh37_chr15:73988946-73989458 and GRCh37_chr15:73989459-73989969
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 sequence was predicted to be a transcriptional regulatory region based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. Two subregions marked by the H3K27ac and H3K4me1 histone modifications were validated as active enhancers by ChIP-STARR-seq in naive human embryonic stem cells. An overlapping subregion was also validated as a functional enhancer by Sharpr-MPRA (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in both HepG2 liver carcinoma cells (group: HepG2 Activating non-DNase unmatched - State 10:DNaseD, primarily Duke DNase, candidate regulatory elements in more likely repressive locations) and K562 erythroleukemia cells (group: K562 Activating non-DNase unmatched - State 10:DNaseD). [provided by RefSeq, Nov 2022]
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Genomic context

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Location:
15q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (73696605..73697628)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (71513818..71514841)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 15 NC_000015.9 (73989389..73989683)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene NPTN intronic transcript 1 Neighboring gene neuroplastin Neighboring gene ReSE screen-validated silencer GRCh37_chr15:73879798-73879963 Neighboring gene NANOG hESC enhancer GRCh37_chr15:73909554-73910143 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr15:73910157-73910718 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6633 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6634 Neighboring gene uncharacterized LOC105370891 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:73975613-73976121 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6635 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6636 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6638 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6637 Neighboring gene H3K27ac hESC enhancer GRCh37_chr15:73977139-73977645 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:73988434-73988945 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6639 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:73994347-73995068 Neighboring gene CD276 molecule Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:74043809-74044582 Neighboring gene inhibitory synaptic factor 1 Neighboring gene INSYN1 antisense RNA 1

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. Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Ernst J, et al. Nat Biotechnol, 2016 Nov. PMID 27701403, 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 variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:73988946-73989458
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:73989459-73989969
  • Sharpr-MPRA regulatory region 8861

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_056748.2 

    Range
    101..1124
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    73696605..73697628
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    71513818..71514841
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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