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LOC127268353 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27928027-27928623 [ Homo sapiens (human) ]

Gene ID: 127268353, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127268353
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27928027-27928623
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 an accessible chromatin subregion that was validated as an enhancer based on its 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 LOC127268353 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (27601516..27602112)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (27442822..27443418)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (27928027..27928623)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 8314 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 549 Neighboring gene WASP family member 2 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27756559-27757532 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 550 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 516 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 551 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 552 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 517 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 518 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27816920-27817464 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27817465-27818009 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 554 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27830147-27830734 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27830735-27831320 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27831321-27831907 Neighboring gene uncharacterized LOC105376892 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27849319-27849901 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27851813-27852451 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 519 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 520 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27855359-27856073 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27864051-27864652 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27869009-27869527 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27869528-27870045 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27881926-27882481 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 556 Neighboring gene AT-hook DNA binding motif containing 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27889385-27890112 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 521 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 522 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27907956-27908485 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27918399-27918972 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27919547-27920120 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27920121-27920694 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 557 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27922307-27922832 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27922833-27923358 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27924447-27925402 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27925403-27926360 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27926361-27927316 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 559 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 523 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 524 Neighboring gene Sharpr-MPRA regulatory region 12291 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27939571-27940071 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27941009-27941556 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 525 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 560 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:27950023-27950844 Neighboring gene Sharpr-MPRA regulatory region 6936 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:27958413-27958913 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 563 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 526 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 564 Neighboring gene FGR proto-oncogene, Src family tyrosine kinase Neighboring gene ATAC-STARR-seq lymphoblastoid active region 565 Neighboring gene uncharacterized LOC729973

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 558

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_090214.1 

    Range
    101..697
    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    27601516..27602112
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    27442822..27443418
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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