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LOC127892371 NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:524141-524834 [ Homo sapiens (human) ]

Gene ID: 127892371, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127892371
Gene description
NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:524141-524834
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 region was validated as an active enhancer by the ChIP-STARR-seq massively parallel reporter assay (MPRA) in naive human embryonic stem cells, where it associates with the NANOG transcription factor and is marked by the H3K27ac and H3K4me1 histone modifications. This locus also includes three accessible chromatin subregions that were validated as enhancers based on their ability to activate an origin of replication minimal core promoter by the ATAC-STARR-seq (assay for transposase-accessible chromatin with self-transcribing active regulatory region sequencing) MPRA in GM12878 lymphoblastoid cells. [provided by RefSeq, May 2023]
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Genomic context

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See LOC127892371 in Genome Data Viewer
Location:
chromosome: 20
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 20 NC_000020.11 (543497..544190)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 20 NC_060944.1 (587201..587894)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 20 NC_000020.10 (524141..524834)

Chromosome 20 - NC_000020.11Genomic Context describing neighboring genes Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:388888-389530 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:389531-390171 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12576 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:410614-411114 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:411115-411615 Neighboring gene RANBP2-type and C3HC4-type zinc finger containing 1 Neighboring gene TBC1 domain family member 20 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:442560-442708 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12577 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12578 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:456844-457048 Neighboring gene casein kinase 2 alpha 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17440 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:522754-523447 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12579 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 17444 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:552949-553709 Neighboring gene Sharpr-MPRA regulatory region 14258 Neighboring gene ReSE screen-validated silencer GRCh37_chr20:572175-572398 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12580 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12581 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:591860-592360 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:592361-592861 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr20:596343-597542 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:601772-602601 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr20:602602-603430 Neighboring gene transcription factor 15 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr20:614811-615388 Neighboring gene uncharacterized LOC107985423 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 12582 Neighboring gene sulfiredoxin 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Bibliography

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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 Variation Viewer (GRCh37.p13)

General gene information

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Other Names

  • ATAC-STARR-seq lymphoblastoid active region 17441
  • ATAC-STARR-seq lymphoblastoid active region 17442
  • ATAC-STARR-seq lymphoblastoid active region 17443

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_142179.1 

    Range
    101..794
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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_000020.11 Reference GRCh38.p14 Primary Assembly

    Range
    543497..544190
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060944.1 Alternate T2T-CHM13v2.0

    Range
    587201..587894
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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