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LOC112577542 OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213141040-213141685 [ Homo sapiens (human) ]

Gene ID: 112577542, updated on 10-Dec-2024

Summary

Gene symbol
LOC112577542
Gene description
OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213141040-213141685
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 naive and primed human embryonic stem cells, where it associates with the OCT4 and NANOG transcription factors and is marked by the H3K27ac and H3K4me1 histone modifications. 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 K562 erythroleukemia cells (group: K562 Activating DNase unmatched - State 20:ReprD, Polycomb repression with Duke DNase/promoter and conservation enriched). [provided by RefSeq, Jan 2023]
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Genomic context

See LOC112577542 in Genome Data Viewer
Location:
1q
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (212967698..212968343)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (212210803..212211448)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (213141040..213141685)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1806 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1807 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:213036285-213036786 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:213036787-213037286 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213081521-213082376 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213082377-213083234 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213083235-213084090 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:213087077-213087678 Neighboring gene OCT4-NANOG-H3K27ac hESC enhancer GRCh37_chr1:213087679-213088279 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213088280-213088881 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213090085-213090684 Neighboring gene uncharacterized LOC124904507 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:213093647-213094446 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213101650-213102592 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213102593-213103534 Neighboring gene MPRA-validated peak689 silencer Neighboring gene FLVCR choline and heme transporter 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2520 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2521 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2522 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213131647-213132304 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213132964-213133621 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:213133682-213134182 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2524 Neighboring gene Sharpr-MPRA regulatory region 1741 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2525 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2526 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213188046-213188634 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213188635-213189222 Neighboring gene CRISPRi-validated cis-regulatory element chr1.11646 Neighboring gene vasohibin 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 1809 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:213231113-213231272 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2528 Neighboring gene angel homolog 2 Neighboring gene ribosomal protein S6 kinase C1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:213325631-213326306 Neighboring gene NANOG hESC enhancer GRCh37_chr1:213349583-213350260 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:213393895-213394085 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:213404976-213405900 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 2529 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:213454938-213455452 Neighboring gene VISTA enhancer hs1324 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213545088-213545614 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:213545615-213546139 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:213572574-213573110 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:213573111-213573646 Neighboring gene MPRA-validated peak692 silencer Neighboring gene VISTA enhancer hs204 Neighboring gene ribosomal protein L31 pseudogene 13

Genomic regions, transcripts, and products

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_060462.2 

    Range
    101..746
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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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    212967698..212968343
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    212210803..212211448
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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