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LOC123987604 OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:1082844-1083475 [ Homo sapiens (human) ]

Gene ID: 123987604, updated on 12-Sep-2024

Summary

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Gene symbol
LOC123987604
Gene description
OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr8:1082844-1083475
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 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 naive human embryonic stem cells, where it associates with the OCT4 and NANOG transcription factors and is marked by the H3K27ac histone modification. A subregion was also validated as a repressive element by Sharpr-MPRA (Systematic high-resolution activation and repression profiling with reporter tiling using massively parallel reporter assays) in HepG2 liver carcinoma cells (group: HepG2 Repressive non-DNase unmatched - State 22:ReprW, weaker Polycomb repression). [provided by RefSeq, Jan 2023]
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Genomic context

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See LOC123987604 in Genome Data Viewer
Location:
8p
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 8 NC_000008.11 (1132844..1133475)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 8 NC_060932.1 (922227..922858)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 8 NC_000008.10 (1082844..1083475)

Chromosome 8 - NC_000008.11Genomic Context describing neighboring genes Neighboring gene DLG associated protein 2 Neighboring gene uncharacterized LOC105377777 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:841689-842428 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:840949-841688 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:851295-851953 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:851954-852611 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:855381-855880 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:864299-864799 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:864873-865374 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:883096-883666 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:888158-888711 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:888712-889264 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:890486-890986 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:899165-900128 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:912422-912922 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:914952-916151 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:945571-946770 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:952935-953435 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:963216-964415 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr8:966834-968033 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:971810-972310 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:972311-972811 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:975802-976302 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr8:1007495-1008126 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1008127-1008757 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1011532-1012388 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1016834-1017358 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1020948-1021474 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1020420-1020947 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1026287-1026787 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1054437-1054938 Neighboring gene uncharacterized LOC124900249 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:1058215-1059131 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:1106443-1107642 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr8:1137192-1138391 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1143844-1144350 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1144351-1144856 Neighboring gene MPRA-validated peak6884 silencer Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:1204552-1205230 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1230934-1231434 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1231435-1231935 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1232453-1232952 Neighboring gene Sharpr-MPRA regulatory region 9258 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1246267-1247120 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr8:1265413-1266612 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1268850-1269350 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr8:1269351-1269851 Neighboring gene uncharacterized LOC124901869 Neighboring gene MPRA-validated peak6885 silencer Neighboring gene uncharacterized LOC286083 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:1298361-1298888 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr8:1298889-1299416

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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

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Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • Sharpr-MPRA regulatory region 700

NCBI Reference Sequences (RefSeq)

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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_078477.2 

    Range
    101..732
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    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_000008.11 Reference GRCh38.p14 Primary Assembly

    Range
    1132844..1133475
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NT_187568.1 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    274134..274765
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060932.1 Alternate T2T-CHM13v2.0

    Range
    922227..922858
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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