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LOC127397708 H3K4me1 hESC enhancer GRCh37_chr3:55523469-55523980 [ Homo sapiens (human) ]

Gene ID: 127397708, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127397708
Gene description
H3K4me1 hESC enhancer GRCh37_chr3:55523469-55523980
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 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 LOC127397708 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 (55489441..55489952)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (55523642..55524153)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (55523469..55523980)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124909383 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:55508124-55508358 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:55515943-55516553 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:55522958-55523468 Neighboring gene VISTA enhancer hs1472 Neighboring gene NANOG hESC enhancer GRCh37_chr3:55545884-55546385 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:55553529-55554030 Neighboring gene WNT5A antisense RNA 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:55589475-55589976 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:55605675-55606302 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:55605047-55605674 Neighboring gene Wnt family member 5A Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:55610793-55611315 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:55612193-55612392 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:55615025-55615237 Neighboring gene uncharacterized LOC105377100 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19976 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:55649046-55649821 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr3:55649822-55650596 Neighboring gene ELKS/RAB6-interacting/CAST family member 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:55681397-55681910 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:55681911-55682424 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19977 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19978 Neighboring gene ERC2 intronic transcript 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_099677.1 

    Range
    101..612
    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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    55489441..55489952
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    55523642..55524153
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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