U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC106783508 nonconserved acetylation island sequence 52 enhancer [ Homo sapiens (human) ]

Gene ID: 106783508, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC106783508
Gene description
nonconserved acetylation island sequence 52 enhancer
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 region, which is poorly conserved between human and mouse at the sequence level, is located in an intron of the imprinted KCNQ1 (potassium channel, voltage gated KQT-like subfamily Q, member 1) gene on chromosome 11. A subregion can function as an enhancer in human Jurkat T cells. Its chromatin structure represents a histone acetylation island in human T cells based on the diacetylation of histone H3 at lysines 9 and 14. This locus also includes two accessible chromatin subregions that were validated as silencers based on their 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) massively parallel reporter assay (MPRA) in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
11p15.5
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (2700128..2701434)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (2789466..2790772)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (2721425..2722664)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene potassium voltage-gated channel subfamily Q member 1 Neighboring gene uncharacterized LOC124902613 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2540941-2541442 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2541443-2541942 Neighboring gene MPRA-validated peak1163 silencer Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4305 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:2554792-2554952 Neighboring gene H3K27ac hESC enhancer GRCh37_chr11:2556786-2557286 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:2582101-2582884 Neighboring gene Sharpr-MPRA regulatory region 10946 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:2590869-2591089 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2600763-2601368 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3071 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4306 Neighboring gene KCNQ1 opposite strand/antisense transcript 1 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2706658-2707620 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2709545-2710505 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:2714101-2714968 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:2729441-2729611 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2735134-2735776 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2739659-2740558 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr11:2741460-2742359 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2744161-2745061 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2745062-2745961 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2746137-2747132 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21090 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2755915-2756416 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_21101 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2759896-2760754 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2762325-2762961 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2791793-2792456 Neighboring gene cytochrome c oxidase subunit 6C pseudogene 18 Neighboring gene uncharacterized LOC124902614 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2818029-2818530 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:2821032-2821969

Genomic regions, transcripts, and products

Go to the top of the page Help

Go to nucleotide: Graphics FASTA GenBank

Bibliography

Go to the top of the pageHelp

Related articles in PubMed

  1. Genome-wide prediction of conserved and nonconserved enhancers by histone acetylation patterns. Roh TY, et al. Genome Res, 2007 Jan. PMID 17135569, Free PMC Article
  2. Active chromatin domains are defined by acetylation islands revealed by genome-wide mapping. Roh TY, et al. Genes Dev, 2005 Mar 1. PMID 15706033, Free PMC Article
  3. ATAC-STARR-seq reveals transcription factor-bound activators and silencers across the chromatin accessible human genome. Hansen TJ, et al. Genome Res, 2022 Jul 20. PMID 35858748, Free PMC Article

GeneRIFs: Gene References Into Functions

Phenotypes

Go to the top of the page Help

Review eQTL and phenotype association data in this region using PheGenI

Variation

Go to the top of the page Help

See variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

Go to the top of the page Help

Other Names

  • ATAC-STARR-seq lymphoblastoid silent region 3072
  • ATAC-STARR-seq lymphoblastoid silent region 3073
  • non-conserved AI 52

NCBI Reference Sequences (RefSeq)

Go to the top of the page Help

NEW Try the new Transcript table

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_046092.2 

    Range
    101..1407
    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_000011.10 Reference GRCh38.p14 Primary Assembly

    Range
    2700128..2701434
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    2789466..2790772
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Molecular Biology Databases