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LOC127822792 H3K27ac-H3K4me1 hESC enhancers GRCh37_chr11:119599234-119600095 and GRCh37_chr11:119600096-119600956 [ Homo sapiens (human) ]

Gene ID: 127822792, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127822792
Gene description
H3K27ac-H3K4me1 hESC enhancers GRCh37_chr11:119599234-119600095 and GRCh37_chr11:119600096-119600956
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 primed human embryonic stem cells, where they are 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, Jun 2023]
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Genomic context

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See LOC127822792 in Genome Data Viewer
Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (119728524..119730246)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (119751350..119753072)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124900303 Neighboring gene nectin cell adhesion molecule 1 Neighboring gene RNA, U6 small nuclear 1123, pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119535306-119535844 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119535845-119536381 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5632 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5633 Neighboring gene Sharpr-MPRA regulatory region 6199 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119560233-119560733 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119562395-119563120 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119563121-119563847 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119564585-119565134 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119565135-119565682 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119566971-119567596 Neighboring gene NECTIN1 antisense RNA 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119584957-119585597 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119588639-119589412 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119594703-119595203 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:119597492-119598434 Neighboring gene NECTIN1 divergent transcript Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119618498-119618998 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5634 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119656890-119657713 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119657714-119658536 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119658954-119659491 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119666350-119666971 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119680838-119681338 Neighboring gene DExD-box helicase 39B pseudogene Neighboring gene uncharacterized LOC124902771 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:119705119-119705301 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:119710555-119711054

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

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid silent region 3983
  • ATAC-STARR-seq lymphoblastoid silent region 3984
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119599234-119600095
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:119600096-119600956

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_124232.2 

    Range
    101..1823
    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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    119728524..119730246
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    119751350..119753072
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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