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LOC126806607 CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:13020550-13021749 [ Homo sapiens (human) ]

Gene ID: 126806607, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126806607
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:13020550-13021749
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. This sequence was defined as a group 2 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on CDK7. [provided by RefSeq, Sep 2022]
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Genomic context

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See LOC126806607 in Genome Data Viewer
Location:
chromosome: 3
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (12979050..12980249)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (12980569..12981768)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124909346 Neighboring gene microtubule affinity regulating kinase 4 pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14071 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19455 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12917663-12918176 Neighboring gene uncharacterized LOC105376956 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12918177-12918689 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19456 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19457 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19458 Neighboring gene long intergenic non-protein coding RNA 2022 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12969075-12969574 Neighboring gene IQ motif and Sec7 domain ArfGEF 1 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:12977492-12978056 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12985145-12985725 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12985857-12986542 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12986543-12987228 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12988583-12989084 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14073 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19459 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:12999703-13000203 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19460 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19461 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14074 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14075 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19462 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14076 Neighboring gene Sharpr-MPRA regulatory region 2966 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13035123-13035681 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14078 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13036241-13036799 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19463 Neighboring gene Sharpr-MPRA regulatory region 4746 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19464 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19465 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19466 Neighboring gene uncharacterized LOC124906214 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19467 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13055383-13055884 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13055885-13056384 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13056642-13057410 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13057411-13058178 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19470 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13058755-13059554 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13059555-13060352 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13060353-13061150 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19472 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19471 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19473 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19474 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14080 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13068313-13068814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13068815-13069314 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13072358-13073358 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13073359-13074357 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13076449-13076949 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19475 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19476 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:13083243-13083838 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19477 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19478 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr3:13088478-13088996 Neighboring gene ribosomal protein L39 pseudogene 17

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

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

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_082927.1 

    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_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    12979050..12980249
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    12980569..12981768
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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