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LOC127268212 hESC enhancers GRCh37_chr1:26185603-26186228 and GRCh37_chr1:26186229-26186854 [ Homo sapiens (human) ]

Gene ID: 127268212, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127268212
Gene description
hESC enhancers GRCh37_chr1:26185603-26186228 and GRCh37_chr1:26186229-26186854
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 two enhancers that were validated by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in primed human embryonic stem cells, where both are marked by the H3K27ac histone modification and one is additionally marked by H3K4me1. This locus also includes three accessible chromatin subregions, two of which were validated as silencers and one as an enhancer based on their ability to repress or 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 LOC127268212 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 (25859112..25860363)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (25696545..25697796)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (26185603..26186854)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene selenoprotein N Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26137118-26137992 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26144488-26144988 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 462 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 466 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 463 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 467 Neighboring gene uncharacterized LOC646471 Neighboring gene mitochondrial fission regulator 1 like Neighboring gene aurora kinase A and ninein interacting protein Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26189139-26189908 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:26196207-26196708 Neighboring gene progestin and adipoQ receptor family member 7 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 469 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 470 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:26201379-26201878 Neighboring gene stathmin 1 Neighboring gene small nuclear ribonucleoprotein polypeptide F pseudogene 2

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 468
  • ATAC-STARR-seq lymphoblastoid silent region 464
  • ATAC-STARR-seq lymphoblastoid silent region 465
  • H3K27ac hESC enhancer GRCh37_chr1:26185603-26186228
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:26186229-26186854

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_090073.2 

    Range
    101..1352
    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
    25859112..25860363
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    25696545..25697796
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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