U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC111556115 GATA motif-containing MPRA enhancer 19 [ Homo sapiens (human) ]

Gene ID: 111556115, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC111556115
Gene description
GATA motif-containing MPRA enhancer 19
Gene type
biological region
Feature type(s)
regulatory: enhancer, 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 was predicted to be a cell type-specific enhancer based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. It was validated as a functional enhancer by high-throughput massively parallel reporter assays (MPRAs) in liver carcinoma HepG2 cells. This enhancer contains a motif for a GATA activator. Mutation of this motif results in reduced enhancer activity. [provided by RefSeq, Dec 2017]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
4q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 4 NC_000004.12 (157994929..157995073)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 4 NC_060928.1 (161347289..161347433)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 4 NC_000004.11 (158916081..158916225)

Chromosome 4 - NC_000004.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 2433 Neighboring gene uncharacterized LOC105377509 Neighboring gene Sharpr-MPRA regulatory region 11014 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr4:158739981-158740800 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr4:158744759-158745958 Neighboring gene uncharacterized LOC124900801 Neighboring gene ribosomal protein L6 pseudogene 11 Neighboring gene ReSE screen-validated silencer GRCh37_chr4:158936869-158937025 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:158965685-158966884 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr4:159015278-159016477 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr4:159091660-159092180 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr4:159092354-159093553 Neighboring gene golgi associated kinase 1B Neighboring gene GASK1B antisense RNA 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. Systematic dissection of regulatory motifs in 2000 predicted human enhancers using a massively parallel reporter assay. Kheradpour P, et al. Genome Res, 2013 May. PMID 23512712, Free PMC Article
  2. Mapping and analysis of chromatin state dynamics in nine human cell types. Ernst J, et al. Nature, 2011 May 5. PMID 21441907, Free PMC Article
  3. Toward a complete human genome sequence. Sanger Center, et al. Genome Res, 1998 Nov. PMID 9847074

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

  • GATA activator MPRA enhancer 19
  • massively parallel reporter assay enhancer 19

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_055955.1 

    Range
    101..245
    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
    157994929..157995073
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060928.1 Alternate T2T-CHM13v2.0

    Range
    161347289..161347433
    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