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LOC126807164 CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:139764110-139765309 [ Homo sapiens (human) ]

Gene ID: 126807164, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126807164
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:139764110-139765309
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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Location:
chromosome: 4
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (138842956..138844155)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (142162262..142163461)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene armadillo repeat containing 1 pseudogene Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:139476624-139477188 Neighboring gene NIN1 (RPN12) binding protein 1 homolog pseudogene Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr4:139568198-139569043 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:139578592-139579140 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:139579689-139580237 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr4:139580238-139580785 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:139580786-139581334 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr4:139581335-139581882 Neighboring gene H3K27ac hESC enhancer GRCh37_chr4:139660090-139660734 Neighboring gene GATA motif-containing MPRA enhancer 163 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:139696241-139696424 Neighboring gene uncharacterized LOC105377448 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:139787241-139787742 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:139821109-139821298 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:139831913-139832494 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21914 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr4:139854116-139854670 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:139898379-139899200 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21915 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21916 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:139935295-139936494 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 21917 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 15693 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:139949204-139949704 Neighboring gene uncharacterized LOC124900780 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:139951907-139952731 Neighboring gene RNA, U6 small nuclear 531, pseudogene Neighboring gene nocturnin

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_083485.1 

    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_000004.12 Reference GRCh38.p14 Primary Assembly

    Range
    138842956..138844155
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    142162262..142163461
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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