U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC111413010 HNF4 motif-containing MPRA enhancer 135 [ Homo sapiens (human) ]

Gene ID: 111413010, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC111413010
Gene description
HNF4 motif-containing MPRA enhancer 135
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 conserved motif for the HNF4 activator. Mutation of this motif results in reduced enhancer activity. [provided by RefSeq, Nov 2017]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
Location:
9p
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (6665030..6665174)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (6669943..6670087)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (6665030..6665174)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene glycine decarboxylase Neighboring gene ribosomal protein L23a pseudogene 57 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:6644939-6645496 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 19769 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28192 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28193 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:6647723-6648278 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr9:6648279-6648834 Neighboring gene NANOG hESC enhancer GRCh37_chr9:6656576-6657082 Neighboring gene RNA, 7SL, cytoplasmic 123, pseudogene Neighboring gene ribosomal protein L35a pseudogene 20 Neighboring gene ring finger protein 2 pseudogene 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

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

  • HNF4 activator MPRA enhancer 135
  • massively parallel reporter assay enhancer 135

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_055843.1 

    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    6665030..6665174
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    6669943..6670087
    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