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LOC127890026 H3K4me1 hESC enhancer GRCh37_chr19:3154789-3155746 [ Homo sapiens (human) ]

Gene ID: 127890026, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127890026
Gene description
H3K4me1 hESC enhancer GRCh37_chr19:3154789-3155746
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 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 LOC127890026 in Genome Data Viewer
Location:
chromosome: 19
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (3154791..3155748)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (3131100..3132057)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (3154789..3155746)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124904615 Neighboring gene ribosomal protein L35 pseudogene 10 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:3141544-3142044 Neighboring gene G protein subunit alpha 15 Neighboring gene GNA15 divergent transcript Neighboring gene Sharpr-MPRA regulatory region 13242 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:3163409-3164269 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:3176749-3177631 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9831 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13727 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13728 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13729 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 13730 Neighboring gene H3K27ac hESC enhancer GRCh37_chr19:3185006-3185888 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 9832 Neighboring gene sphingosine-1-phosphate receptor 4 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3189343-3189846 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:3189847-3190350 Neighboring gene nicalin

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 13725
  • ATAC-STARR-seq lymphoblastoid active region 13726

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_139986.1 

    Range
    101..1058
    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_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    3154791..3155748
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    3131100..3132057
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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