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LOC127270935 H3K27ac hESC enhancer GRCh37_chr1:180471258-180471758 [ Homo sapiens (human) ]

Gene ID: 127270935, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127270935
Gene description
H3K27ac hESC enhancer GRCh37_chr1:180471258-180471758
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 primed human embryonic stem cells, where it is marked by the H3K27ac histone modification. This locus also includes two accessible chromatin subregions, one of which was validated as an enhancer and the other as a silencer based on their ability to activate or 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 LOC127270935 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 (180502123..180502644)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (179857122..179857643)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (180471258..180471779)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene acyl-CoA binding domain containing 6 Neighboring gene voltage dependent anion channel 1 pseudogene 4 Neighboring gene microRNA 3121 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:180470119-180470634 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:180470635-180471150 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2164 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr1:180490465-180491664 Neighboring gene uncharacterized LOC124904658 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:180540570-180541769 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:180555052-180555235 Neighboring gene CRISPRi-validated cis-regulatory element chr1.10130 Neighboring gene ovarian adenocarcinoma amplified long non-coding RNA Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:180601022-180601522 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:180601523-180602023 Neighboring gene MPRA-validated peak486 silencer Neighboring gene xenotropic and polytropic retrovirus receptor 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:180679967-180680667 Neighboring gene uncharacterized LOC124904687

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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 2163
  • ATAC-STARR-seq lymphoblastoid silent region 1594

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_092787.2 

    Range
    101..622
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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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    180502123..180502644
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    179857122..179857643
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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