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LOC127886909 H3K4me1 hESC enhancer GRCh37_chr17:40811134-40811901 [ Homo sapiens (human) ]

Gene ID: 127886909, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127886909
Gene description
H3K4me1 hESC enhancer GRCh37_chr17:40811134-40811901
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 primed human embryonic stem cells, where it is marked by the H3K4me1 histone modification. This locus also includes three 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 LOC127886909 in Genome Data Viewer
Location:
chromosome: 17
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (42659116..42659883)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (43516253..43517020)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (40811134..40811901)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene ATP synthase membrane subunit g pseudogene 7 Neighboring gene high mobility group box 3 pseudogene 27 Neighboring gene tubulin gamma 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:40820248-40820823 Neighboring gene pleckstrin homology, MyTH4 and FERM domain containing H3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12216 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40825209-40826082 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8540 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8541 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8542 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8543 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12217 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 12218 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:40829663-40830164 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:40830165-40830664 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40831166-40832014 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:40832015-40832863 Neighboring gene Sharpr-MPRA regulatory region 12568 Neighboring gene C-C motif chemokine receptor 10

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 12213
  • ATAC-STARR-seq lymphoblastoid active region 12214
  • ATAC-STARR-seq lymphoblastoid active region 12215

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_136596.1 

    Range
    101..868
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    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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    42659116..42659883
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    43516253..43517020
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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