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LOC127824073 NANOG hESC enhancer GRCh37_chr12:48551082-48551604 [ Homo sapiens (human) ]

Gene ID: 127824073, updated on 12-Sep-2024

Summary

Gene symbol
LOC127824073
Gene description
NANOG hESC enhancer GRCh37_chr12:48551082-48551604
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. 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

See LOC127824073 in Genome Data Viewer
Location:
chromosome: 12
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (48157299..48157821)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (48118646..48119168)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (48551082..48551604)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene SUMO specific peptidase 1 Neighboring gene V-type proton ATPase subunit F-like Neighboring gene ReSE screen-validated silencer GRCh37_chr12:48484832-48485048 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:48498859-48499734 Neighboring gene H3K27ac hESC enhancer GRCh37_chr12:48499735-48500608 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6279 Neighboring gene phosphofructokinase, muscle Neighboring gene microRNA 6505 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr12:48536214-48537195 Neighboring gene SCO1 cytochrome c oxidase assembly protein pseudogene Neighboring gene ankyrin repeat and SOCS box containing 8 Neighboring gene Sharpr-MPRA regulatory regions 9525 and 5417 Neighboring gene PHB1 pseudogene 18

Genomic regions, transcripts, and products

General gene information

Other Names

  • ATAC-STARR-seq lymphoblastoid active region 6280
  • ATAC-STARR-seq lymphoblastoid active region 6281
  • ATAC-STARR-seq lymphoblastoid active region 6282

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_125593.1 

    Range
    101..623
    Download
    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_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    48157299..48157821
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    48118646..48119168
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)