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LOC127885341 H3K27ac hESC enhancer GRCh37_chr17:1465907-1466406 [ Homo sapiens (human) ]

Gene ID: 127885341, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127885341
Gene description
H3K27ac hESC enhancer GRCh37_chr17:1465907-1466406
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 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 H3K27ac histone modification. This locus also includes an accessible chromatin subregion that was validated as a silencer based on its 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 LOC127885341 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 (1562613..1563112)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (1451316..1451815)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (1465907..1466406)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes 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 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1437952-1438452 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr17:1445478-1446238 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1453921-1454835 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11453 Neighboring gene MPRA-validated peak2674 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1463158-1464124 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11454 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7961 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7962 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11455 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1474719-1475554 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1478810-1479622 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1479623-1480434 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1480435-1481246 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1481247-1482057 Neighboring gene solute carrier family 43 member 2 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1488375-1488922 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1488923-1489468 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1489469-1490015 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1490016-1490561 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1490562-1491108 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1491109-1491655 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1493297-1493842 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:1493843-1494388 Neighboring gene ReSE screen-validated silencer GRCh37_chr17:1495156-1495321 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1496929-1497430 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:1509837-1510602 Neighboring gene RNA, 7SL, cytoplasmic 105, pseudogene Neighboring gene small nucleolar RNA U13

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 7963

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_135082.1 

    Range
    101..600
    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_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    1562613..1563112
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    1451316..1451815
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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