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LOC127883912 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49738731-49739411 [ Homo sapiens (human) ]

Gene ID: 127883912, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127883912
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49738731-49739411
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 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 an accessible chromatin subregion that was validated as an enhancer based on its ability to activate 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 LOC127883912 in Genome Data Viewer
Location:
chromosome: 16
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (49704818..49705500)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (55502512..55503194)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (49738729..49739411)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2179 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7461 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49526437-49527060 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49527061-49527682 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10804 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10805 Neighboring gene zinc finger protein 423 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49557435-49557934 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49561586-49562584 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49572197-49572697 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49572734-49573234 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49582132-49582944 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49582945-49583756 Neighboring gene ADAM metallopeptidase domain 3B (pseudogene) Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49591427-49592314 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:49602152-49602652 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:49602653-49603153 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49630850-49631370 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49649156-49649656 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49649657-49650157 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49651175-49651675 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr16:49681934-49683133 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49695163-49695664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49695665-49696164 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49696971-49697505 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49697506-49698039 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:49714232-49715152 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49729865-49730546 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49730547-49731228 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49731229-49731910 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49731911-49732592 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49732593-49733274 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49733957-49734638 Neighboring gene VISTA enhancer hs625 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49746094-49746661 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49746662-49747228 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49753579-49754080 Neighboring gene mitochondrial ribosomal protein S21 pseudogene 7 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49778329-49778910 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:49780200-49780700 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49787863-49788521 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:49788522-49789180 Neighboring gene mitochondrial ribosomal protein S21 pseudogene 8

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 10806

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_133811.2 

    Range
    101..783
    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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    49704818..49705500
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    55502512..55503194
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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