U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

LOC121366031 OCT4-NANOG hESC enhancer GRCh37_chr9:133741863-133742364 [ Homo sapiens (human) ]

Gene ID: 121366031, updated on 10-Oct-2023

Summary

Go to the top of the page Help
Gene symbol
LOC121366031
Gene description
OCT4-NANOG hESC enhancer GRCh37_chr9:133741863-133742364
Gene type
biological region
Feature type(s)
regulatory: enhancer
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This genomic sequence was predicted to be a transcriptional regulatory region based on chromatin state analysis from the ENCODE (ENCyclopedia Of DNA Elements) project. It was validated as an active enhancer by the ChIP-STARR-seq massively parallel reporter assay in primed human embryonic stem cells, where it associates with the OCT4 and NANOG transcription factors. A subregion was also validated as an enhancer by Sharpr-MPRA (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in both HepG2 liver carcinoma cells (group: HepG2 Activating DNase unmatched - State 12:CtcfO, distal CTCF/candidate insulator with open chromatin) and K562 erythroleukemia cells (group: K562 Activating DNase unmatched - State 25:Art, potential CNV or repetitive artifacts). [provided by RefSeq, Jan 2023]
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

Go to the top of the page Help
See LOC121366031 in Genome Data Viewer
Location:
9q
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (130866476..130866977)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (143071349..143071850)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (133741869..133742163)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene ABL breakpoint recombination region Neighboring gene ABL proto-oncogene 1, non-receptor tyrosine kinase Neighboring gene uncharacterized LOC124902288 Neighboring gene uncharacterized LOC124902287 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:133709696-133710222 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:133710223-133710748 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20408 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr9:133722835-133723457 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133735115-133735964 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133735965-133736812 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133737874-133738374 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133738375-133738875 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29164 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr9:133756258-133757457 Neighboring gene H3K27ac hESC enhancer GRCh37_chr9:133759146-133759916 Neighboring gene Sharpr-MPRA regulatory region 3771 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133769017-133769531 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133770320-133771007 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133771008-133771694 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133789692-133790384 Neighboring gene pyroglutamylated RFamide peptide Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133794286-133794826 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:133796861-133797810 Neighboring gene fibrinogen C domain containing 1 Neighboring gene ReSE screen-validated silencer GRCh37_chr9:133798030-133798213 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133798761-133799708 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29165 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133805119-133805663 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29166 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 29167 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:133814336-133815266 Neighboring gene FIBCD1 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. Genome-scale high-resolution mapping of activating and repressive nucleotides in regulatory regions. Ernst J, et al. Nat Biotechnol, 2016 Nov. PMID 27701403, Free PMC Article
  2. Functional Dissection of the Enhancer Repertoire in Human Embryonic Stem Cells. Barakat TS, et al. Cell Stem Cell, 2018 Aug 2. PMID 30033119, 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

  • Sharpr-MPRA regulatory region 7858

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_074381.2 

    Range
    101..602
    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
    130866476..130866977
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    143071349..143071850
    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