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LOC127397397 H3K4me1 hESC enhancer GRCh37_chr3:48725238-48725738 [ Homo sapiens (human) ]

Gene ID: 127397397, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127397397
Gene description
H3K4me1 hESC enhancer GRCh37_chr3:48725238-48725738
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 in naive and primed human embryonic stem cells. This enhancer is marked by the H3K4me1 histone modification. [provided by RefSeq, Oct 2022]
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Genomic context

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See LOC127397397 in Genome Data Viewer
Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (48687805..48688305)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (48716790..48717290)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (48725238..48725738)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19841 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19842 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:48702141-48702725 Neighboring gene long intergenic non-protein coding RNA 2585 Neighboring gene Sharpr-MPRA regulatory region 90 Neighboring gene NCK interacting protein with SH3 domain Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:48725739-48726239 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:48732697-48733286 Neighboring gene inositol hexakisphosphate kinase 2 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:48750133-48750632 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14339 Neighboring gene protein kinase cAMP-dependent type II regulatory subunit alpha Neighboring gene MPRA-validated peak4643 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:48806609-48807260 Neighboring gene MPRA-validated peak4644 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14340 Neighboring gene PRKAR2A 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. 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)

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_099366.1 

    Range
    101..601
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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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    48687805..48688305
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    48716790..48717290
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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