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LOC127829604 NANOG hESC enhancer GRCh37_chr15:58853387-58853916 [ Homo sapiens (human) ]

Gene ID: 127829604, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127829604
Gene description
NANOG hESC enhancer GRCh37_chr15:58853387-58853916
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 in naive human embryonic stem cells. This enhancer associates with the NANOG transcription factor. [provided by RefSeq, Nov 2022]
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Genomic context

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See LOC127829604 in Genome Data Viewer
Location:
chromosome: 15
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 15 NC_000015.10 (58561188..58561717)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 15 NC_060939.1 (56363185..56363715)

Chromosome 15 - NC_000015.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124903499 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:58540501-58541001 Neighboring gene Sharpr-MPRA regulatory region 5540 Neighboring gene P300/CBP strongly-dependent group 1 enhancer GRCh37_chr15:58576109-58577308 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:58624073-58625272 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:58638163-58638664 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:58638665-58639164 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9466 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9467 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9468 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:58655345-58655845 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9469 Neighboring gene MPRA-validated peak2354 silencer Neighboring gene Sharpr-MPRA regulatory region 6038 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9470 Neighboring gene Sharpr-MPRA regulatory region 12189 Neighboring gene ReSE screen-validated silencer GRCh37_chr15:58731214-58731454 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr15:58741275-58741775 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6479 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9471 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9472 Neighboring gene LIPC antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 6480 Neighboring gene lipase C, hepatic type Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr15:58813484-58814683 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr15:58840709-58841347 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9473 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9474 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 9475 Neighboring gene small nucleolar RNA U13 Neighboring gene ADAM metallopeptidase domain 10 Neighboring gene high mobility group box 1 pseudogene 51

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. 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

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_131086.1 

    Range
    101..630
    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_000015.10 Reference GRCh38.p14 Primary Assembly

    Range
    58561188..58561717
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060939.1 Alternate T2T-CHM13v2.0

    Range
    56363185..56363715
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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