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LOC127826223 NANOG-H3K4me1 hESC enhancer GRCh37_chr13:45944664-45945164 [ Homo sapiens (human) ]

Gene ID: 127826223, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127826223
Gene description
NANOG-H3K4me1 hESC enhancer GRCh37_chr13:45944664-45945164
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 and is marked by the H3K4me1 histone modification. [provided by RefSeq, Nov 2022]
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Genomic context

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See LOC127826223 in Genome Data Viewer
Location:
chromosome: 13
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 13 NC_000013.11 (45370529..45371029)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 13 NC_060937.1 (44590801..44591301)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 13 NC_000013.10 (45944664..45945164)

Chromosome 13 - NC_000013.11Genomic Context describing neighboring genes Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:45914388-45915177 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5314 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5315 Neighboring gene uncharacterized LOC124903169 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr13:45916757-45917544 Neighboring gene small nucleolar RNA, H/ACA box 31 Neighboring gene tumor protein, translationally-controlled 1 Neighboring gene TPT1 antisense RNA 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr13:45941608-45942114 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr13:45945165-45945665 Neighboring gene Sharpr-MPRA regulatory region 12652 Neighboring gene reticulocalbin 1 pseudogene 2 Neighboring gene solute carrier family 25 member 30 Neighboring gene Sharpr-MPRA regulatory region 15232 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7679 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5316 Neighboring gene SLC25A30 antisense RNA 1 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 5317 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 7680

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

Variation

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See Variation Viewer (GRCh37.p13)

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_127730.1 

    Range
    101..601
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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_000013.11 Reference GRCh38.p14 Primary Assembly

    Range
    45370529..45371029
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060937.1 Alternate T2T-CHM13v2.0

    Range
    44590801..44591301
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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