U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC116216132 CRISPRi-validated cis-regulatory element chr11.1734 [ Homo sapiens (human) ]

Gene ID: 116216132, updated on 12-Sep-2024

Summary

Go to the top of the page Help
Gene symbol
LOC116216132
Gene description
CRISPRi-validated cis-regulatory element chr11.1734
Gene type
biological region
Feature type(s)
regulatory: transcriptional_cis_regulatory_region
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 represents a DNase I hypersensitive site (DHS) that was predicted to be an enhancer by the ENCODE (ENCyclopedia Of DNA Elements) project based on various combinations of H3K27 acetylation and binding of p300, GATA1 and RNA polymerase II in K562 erythroleukemia cells. It was validated as a high-confidence cis-regulatory element for both the CAT (catalase) and LMO2 (LIM domain only 2) genes on chromosome 11 based on multiplex CRISPR/Cas9-mediated perturbation in K562 cells. [provided by RefSeq, Nov 2019]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC116216132 in Genome Data Viewer
Location:
11p
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 11 NC_000011.10 (33941545..33942142)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 11 NC_060935.1 (34078706..34079303)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 11 NC_000011.9 (33963092..33963689)

Chromosome 11 - NC_000011.10Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4587 Neighboring gene uncharacterized LOC105376621 Neighboring gene uncharacterized LOC124902659 Neighboring gene Sharpr-MPRA regulatory region 4704 Neighboring gene CRISPRi-validated cis-regulatory element chr11.1732 Neighboring gene CRISPRi-validated cis-regulatory element chr11.1733 Neighboring gene VISTA enhancer hs1858 Neighboring gene Sharpr-MPRA regulatory region 12713 Neighboring gene Sharpr-MPRA regulatory region 9356 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr11:34011296-34011867 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:34018010-34018510 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr11:34018511-34019011 Neighboring gene uncharacterized LOC101929918 Neighboring gene ReSE screen-validated silencer GRCh37_chr11:34072933-34073132 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 3250 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4588 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4589 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4590 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 4591 Neighboring gene uncharacterized LOC124902660 Neighboring gene cell cycle associated protein 1

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. A Genome-wide Framework for Mapping Gene Regulation via Cellular Genetic Screens. Gasperini M, et al. Cell, 2019 Jan 10. PMID 30612741, Free PMC Article
  2. An integrated encyclopedia of DNA elements in the human genome. ENCODE Project Consortium. Nature, 2012 Sep 6. PMID 22955616, Free PMC Article
  3. The accessible chromatin landscape of the human genome. Thurman RE, et al. Nature, 2012 Sep 6. PMID 22955617, 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)

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_066897.1 

    Range
    101..698
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2024_08

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
    33941545..33942142
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060935.1 Alternate T2T-CHM13v2.0

    Range
    34078706..34079303
    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