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LOC127885336 H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1394312-1395031 [ Homo sapiens (human) ]

Gene ID: 127885336, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127885336
Gene description
H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1394312-1395031
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
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 includes an enhancer that was validated 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 two accessible chromatin subregions that were validated as silencers based on their ability to repress 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 LOC127885336 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 (1491018..1491941)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (1379771..1380698)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (1394312..1395235)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene Sharpr-MPRA regulatory region 14526 Neighboring gene tyrosine 3-monooxygenase/tryptophan 5-monooxygenase activation protein epsilon Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1295206-1295734 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1302101-1302738 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1302739-1303376 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1303377-1304014 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1304957-1305572 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr17:1305573-1306188 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1335344-1335844 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1335845-1336345 Neighboring gene Sharpr-MPRA regulatory region 4720 Neighboring gene CRK proto-oncogene, adaptor protein Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1357059-1357560 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1358695-1359680 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1366499-1367318 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11449 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1371831-1372451 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7954 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11450 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11451 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11452 Neighboring gene myosin IC Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7955 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7956 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7957 Neighboring gene uncharacterized LOC105371483 Neighboring gene inositol polyphosphate-5-phosphatase K Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7960 Neighboring gene PITPNA antisense RNA 1 Neighboring gene phosphatidylinositol transfer protein alpha

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 silent region 7958
  • ATAC-STARR-seq lymphoblastoid silent region 7959

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_135077.2 

    Range
    101..1024
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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
    1491018..1491941
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    1379771..1380698
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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