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LOC126806643 CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:31418321-31419520 [ Homo sapiens (human) ]

Gene ID: 126806643, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126806643
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:31418321-31419520
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 LOC126806643 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 (31376829..31378028)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (31379300..31380499)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124909359 Neighboring gene H3 histone pseudogene 11 Neighboring gene Sharpr-MPRA regulatory region 2436 Neighboring gene MED14-independent group 3 enhancer GRCh37_chr3:31398204-31399403 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19628 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr3:31453982-31455181 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14159 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:31490161-31490339 Neighboring gene THRAP3 pseudogene 1 Neighboring gene Sharpr-MPRA regulatory region 4459 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_69494 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:31568343-31568843 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19629 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14161 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14162 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14163 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 19630 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:31576589-31577090 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:31577091-31577590 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_69540 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_69549 Neighboring gene STT3 oligosaccharyltransferase complex catalytic subunit B

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_082963.1 

    Range
    101..1300
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    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
    31376829..31378028
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    31379300..31380499
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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