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LOC126861248 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:69064594-69065793 [ Homo sapiens (human) ]

Gene ID: 126861248, updated on 12-Sep-2024

Summary

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Gene symbol
LOC126861248
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr11:69064594-69065793
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 enhancers that were validated by the STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay (MPRA). The major subregion had activity in HCT116 colorectal carcinoma cells, where it was defined as a group 1 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on P300/CBP. Two subregions marked by the H3K27ac and H3K4me1 histone modifications were also shown to be active enhancers by ChIP-STARR-seq in primed human embryonic stem cells. 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, May 2023]
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Genomic context

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See LOC126861248 in Genome Data Viewer
Location:
chromosome: 11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (69297005..69298742)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (69314170..69315907)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (69064472..69066209)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC105369367 Neighboring gene uncharacterized LOC105369368 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5154 Neighboring gene VISTA enhancer hs2073 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69060193-69060744 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:69066990-69067178 Neighboring gene myeloma overexpressed Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69078345-69078844 Neighboring gene interferon induced transmembrane protein 9 pseudogene Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69088091-69088958 Neighboring gene uncharacterized LOC105369370 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 5158 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69153613-69154114 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69154115-69154614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:69157262-69158194 Neighboring gene MPRA-validated peak1324 silencer

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. Differential cofactor dependencies define distinct types of human enhancers. Neumayr C, et al. Nature, 2022 Jun. PMID 35650434, Free PMC Article
  2. 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
  3. 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 variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid active region 5155
  • ATAC-STARR-seq lymphoblastoid active region 5156
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69064472-69065334
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:69065335-69066196

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_085747.3 

    Range
    101..1838
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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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    69297005..69298742
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    69314170..69315907
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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