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LOC126805579 CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:2211723-2212922 [ Homo sapiens (human) ]

Gene ID: 126805579, updated on 10-Oct-2023

Summary

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Gene symbol
LOC126805579
Gene description
CDK7 strongly-dependent group 2 enhancer GRCh37_chr1:2211723-2212922
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 LOC126805579 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (2280284..2281483)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (1715700..1716966)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene FA core complex associated protein 20 Neighboring gene uncharacterized LOC105378593 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2141004-2141857 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2143180-2144018 Neighboring gene uncharacterized LOC124903823 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2155824-2156324 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2157679-2158499 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 108 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2162329-2162990 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 49 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 50 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2167621-2168533 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2168534-2169446 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2172187-2173099 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2174837-2175357 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2178827-2179753 Neighboring gene hESC enhancers GRCh37_chr1:2179754-2180679 and GRCh37_chr1:2180680-2181606 Neighboring gene SKI proto-oncogene Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr1:2186989-2188188 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2188191-2188788 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 51 Neighboring gene Sharpr-MPRA regulatory region 2016 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2202895-2203857 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2204820-2205782 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2206746-2207708 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2209681-2210475 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2210476-2211270 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2214621-2215290 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2215961-2216629 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 52 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2224323-2225233 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2225474-2225974 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2229335-2229846 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2229847-2230358 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 53 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:2238093-2238726 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2244613-2245266 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 109 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 110 Neighboring gene uncharacterized LOC124903824 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2246747-2247500 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:2253541-2254148 Neighboring gene MORN repeat containing 1 Neighboring gene small nuclear ribonucleoprotein polypeptide N pseudogene

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_081904.1 

    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    2280284..2281483
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    1715700..1716966
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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