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LOC127408420 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5597701-5598249 [ Homo sapiens (human) ]

Gene ID: 127408420, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127408420
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5597701-5598249
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 was validated as an active enhancer 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 two accessible chromatin subregions that were validated as enhancers based on their 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 LOC127408420 in Genome Data Viewer
Location:
chromosome: 7
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (5558070..5558618)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (5675592..5676140)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 7 NC_000007.13 (5597701..5598249)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5553484-5554070 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5554071-5554656 Neighboring gene uncharacterized LOC221946 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25584 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25585 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25586 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25587 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25588 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25589 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25590 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5567118-5567988 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5567989-5568858 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5568859-5569728 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17919 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25594 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25595 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25596 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5573209-5574078 Neighboring gene actin beta Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25597 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25598 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:5586399-5586898 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5593001-5593846 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5594693-5595538 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5595539-5596384 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25599 Neighboring gene S100 calcium binding protein A11 pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5601490-5602016 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5602017-5602541 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5602542-5603067 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:5609174-5610162 Neighboring gene CRISPRi-validated cis-regulatory element chr7.769 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25602 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17924 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:5626381-5626880 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25603 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25604 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17925 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17926 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:5633617-5634192 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 17928 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:5634770-5635345 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:5636965-5637180 Neighboring gene fascin actin-bundling protein 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:5642390-5643243 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:5643244-5644096

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 25600
  • ATAC-STARR-seq lymphoblastoid active region 25601

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_110388.1 

    Range
    101..649
    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    5558070..5558618
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    5675592..5676140
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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