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LOC126859968 CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:24865671-24866870 [ Homo sapiens (human) ]

Gene ID: 126859968, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126859968
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr7:24865671-24866870
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 was validated as an active enhancer by the STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay 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. A subregion was also validated as an enhancer by ChIP-STARR-seq in primed human embryonic stem cells, where it associates with the NANOG transcription factor and is marked by the H3K27ac histone modification. [provided by RefSeq, Dec 2022]
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Genomic context

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Location:
chromosome: 7
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 7 NC_000007.14 (24826052..24827251)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 7 NC_060931.1 (24964062..24965261)

Chromosome 7 - NC_000007.14Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25747 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25748 Neighboring gene SUMO2 pseudogene 14 Neighboring gene protein associated with LIN7 2, MAGUK p55 family member Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr7:24725223-24725819 Neighboring gene Sharpr-MPRA regulatory region 3197 Neighboring gene ReSE screen-validated silencer GRCh37_chr7:24744538-24744707 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:24757299-24757886 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25749 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25750 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25751 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:24764003-24764686 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:24765371-24766054 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:24766055-24766736 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25752 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25753 Neighboring gene Sharpr-MPRA regulatory region 13058 Neighboring gene gasdermin E Neighboring gene translation initiation factor IF-2-like Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18018 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18019 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25754 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18020 Neighboring gene Sharpr-MPRA regulatory region 12520 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25755 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25756 Neighboring gene MPRA-validated peak6442 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:24834867-24835372 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:24834361-24834866 Neighboring gene NANOG hESC enhancer GRCh37_chr7:24841903-24842404 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25757 Neighboring gene oxysterol binding protein like 3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25758 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25759 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25760 Neighboring gene small nuclear ribonucleoprotein polypeptide C pseudogene 19 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:24990225-24990724 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25761 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr7:25010975-25011630 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18021 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 18022 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25762 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:25068437-25068938 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr7:25098668-25099168 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25763 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25764 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25765 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25766 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 25767 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:25163804-25164348 Neighboring gene H3K27ac hESC enhancer GRCh37_chr7:25164349-25164892 Neighboring gene cytochrome c, somatic

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

General gene information

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Other Names

  • NANOG-H3K27ac hESC enhancer GRCh37_chr7:24865757-24866262

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_084469.1 

    Range
    101..1300
    Download
    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_000007.14 Reference GRCh38.p14 Primary Assembly

    Range
    24826052..24827251
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060931.1 Alternate T2T-CHM13v2.0

    Range
    24964062..24965261
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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