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LOC126806137 P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:10547784-10548983 [ Homo sapiens (human) ]

Gene ID: 126806137, updated on 10-Oct-2023

Summary

Gene symbol
LOC126806137
Gene description
P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:10547784-10548983
Gene type
biological region
Feature type(s)
regulatory: enhancer, silencer
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 includes enhancers that were validated by the STARR-seq (self-transcribing active regulatory region sequencing) massively parallel reporter assay (MPRA). The major subregion had activity in HCT116 colorectal carcinoma cells, where it was defined as a group 1 enhancer that depends on the BRD2, BRD4, P300/CBP, MED14 and CDK7 cofactors, with strong dependence on P300/CBP. Two subregions marked by the H3K27ac and H3K4me1 histone modifications were also shown to be active enhancers by ChIP-STARR-seq in naive human embryonic stem cells. This locus also includes an accessible chromatin subregion that was validated as a silencer based on its ability to repress an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

Location:
chromosome: 2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (10407658..10409329)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (10437273..10438938)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr2:10422935-10424134 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10424193-10424793 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10425933-10426432 Neighboring gene uncharacterized LOC101929691 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr2:10429268-10430467 Neighboring gene RNA, 7SL, cytoplasmic 66, pseudogene Neighboring gene small nucleolar RNA SNORA51 Neighboring gene CRISPRi-validated cis-regulatory element chr2.403 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:10443229-10443426 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15300 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11161 Neighboring gene hippocalcin like 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10459734-10460234 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10460235-10460735 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15301 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11162 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10471739-10472326 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10484271-10484771 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr2:10508004-10508811 Neighboring gene Sharpr-MPRA regulatory region 2000 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10513139-10513866 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10513867-10514592 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10522419-10523074 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10523075-10523728 Neighboring gene uncharacterized LOC124905972 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10559385-10559972 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10559973-10560560 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10564889-10565701 Neighboring gene uncharacterized LOC124907732 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10572745-10573710 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:10573711-10574675 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15303 Neighboring gene ReSE screen-validated silencer GRCh37_chr2:10586390-10586619 Neighboring gene small nucleolar RNA, H/ACA box 80B Neighboring gene ornithine decarboxylase 1

Genomic regions, transcripts, and products

General gene information

Other Names

  • ATAC-STARR-seq lymphoblastoid silent region 11163
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10548231-10548842
  • H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:10548843-10549455

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_082461.2 

    Range
    101..1772
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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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    10407658..10409329
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    10437273..10438938
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)