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LOC126861104 CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:134826346-134827545 [ Homo sapiens (human) ]

Gene ID: 126861104, updated on 12-Sep-2024

Summary

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Gene symbol
LOC126861104
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr10:134826346-134827545
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. The major subregion had activity in HCT116 colorectal carcinoma cells, where it was defined as a group 2 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on CDK7. Two subregions marked by the H3K27ac and H3K4me1 histone modifications were also shown to be active enhancers by ChIP-STARR-seq in human embryonic stem cells. [provided by RefSeq, Nov 2022]
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Genomic context

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See LOC126861104 in Genome Data Viewer
Location:
chromosome: 10
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 10 NC_000010.11 (133012522..133014171)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 10 NC_060934.1 (133962501..133964150)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 10 NC_000010.10 (134826026..134827675)

Chromosome 10 - NC_000010.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902527 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134784639-134785360 Neighboring gene long intergenic non-protein coding RNA 1168 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134788466-134789292 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134791193-134792098 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134797107-134797622 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134797623-134798136 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134798137-134798651 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134804871-134805372 Neighboring gene uncharacterized LOC107984283 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134807738-134808420 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134821415-134822242 Neighboring gene uncharacterized LOC112268067 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134843359-134843972 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134844587-134845200 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134863995-134864618 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr10:134871141-134872133 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134877264-134877766 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134885135-134885816 Neighboring gene MPRA-validated peak1134 silencer Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134902582-134903344 Neighboring gene ADGRA1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr10:134911870-134912370 Neighboring gene adhesion G protein-coupled receptor A1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134915449-134916424 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134917665-134918227 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134918228-134918789 Neighboring gene CEB36 minisatellite repeat instability region Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134940316-134941027 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134941028-134941740

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. 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

  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134826026-134826576
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr10:134827126-134827675

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_085603.2 

    Range
    101..1750
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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_000010.11 Reference GRCh38.p14 Primary Assembly

    Range
    133012522..133014171
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060934.1 Alternate T2T-CHM13v2.0

    Range
    133962501..133964150
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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