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LOC127898381 H3K27ac hESC enhancers GRCh37_chrX:135961809-135962408 and GRCh37_chrX:135962409-135963007 [ Homo sapiens (human) ]

Gene ID: 127898381, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127898381
Gene description
H3K27ac hESC enhancers GRCh37_chrX:135961809-135962408 and GRCh37_chrX:135962409-135963007
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 includes two enhancers that were validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in primed human embryonic stem cells, where they are marked by the H3K27ac 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, Jun 2023]
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Genomic context

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Location:
chromosome: X
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) X NC_000023.11 (136879650..136880848)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) X NC_060947.1 (135188377..135189575)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29997 Neighboring gene RAB28, member RAS oncogene family pseudogene 5 Neighboring gene MED14-independent group 3 enhancer GRCh37_chrX:135956167-135957366 Neighboring gene RNA binding motif protein X-linked Neighboring gene small nucleolar RNA, C/D box 61 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30000 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30001 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30002 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 30003 Neighboring gene ribosomal protein L22 pseudogene 23 Neighboring gene transmembrane 9 superfamily member 5, pseudogene Neighboring gene serine/arginine repetitive matrix 1 pseudogene 3

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 across the chromatin accessible human genome. Hansen TJ, et al. Genome Res, 2022 Jul 20. 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

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid active region 29998
  • ATAC-STARR-seq lymphoblastoid active region 29999
  • H3K27ac hESC enhancer GRCh37_chrX:135961809-135962408
  • H3K27ac hESC enhancer GRCh37_chrX:135962409-135963007

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_147694.2 

    Range
    101..1299
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    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p14 Primary Assembly

    Range
    136879650..136880848
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060947.1 Alternate T2T-CHM13v2.0

    Range
    135188377..135189575
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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