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LOC126807625 CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:179003374-179004573 [ Homo sapiens (human) ]

Gene ID: 126807625, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126807625
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr5:179003374-179004573
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 LOC126807625 in Genome Data Viewer
Location:
chromosome: 5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 5 NC_000005.10 (179576373..179577572)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 5 NC_060929.1 (180129169..180130365)

Chromosome 5 - NC_000005.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC128966623 Neighboring gene uncharacterized LOC105377762 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23750 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 16730 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178981435-178981935 Neighboring gene ReSE screen-validated silencer GRCh37_chr5:178982640-178982816 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23751 Neighboring gene RUN and FYVE domain containing 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:178998880-178999380 Neighboring gene peroxiredoxin 2 pseudogene 3 Neighboring gene RUFY1 antisense RNA 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179033750-179034250 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr5:179034251-179034751 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23752 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23753 Neighboring gene heterogeneous nuclear ribonucleoprotein H1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 23754 Neighboring gene Sharpr-MPRA regulatory region 11836 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr5:179051499-179052283 Neighboring gene H3K27ac hESC enhancer GRCh37_chr5:179059505-179060005

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_083939.1 

    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_000005.10 Reference GRCh38.p14 Primary Assembly

    Range
    179576373..179577572
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_016107298.1 Reference GRCh38.p14 PATCHES

    Range
    341016..342219
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060929.1 Alternate T2T-CHM13v2.0

    Range
    180129169..180130365
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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