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LOC127815178 NANOG-H3K4me1 hESC enhancer GRCh37_chr9:93909043-93909610 [ Homo sapiens (human) ]

Gene ID: 127815178, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127815178
Gene description
NANOG-H3K4me1 hESC enhancer GRCh37_chr9:93909043-93909610
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 primed 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 LOC127815178 in Genome Data Viewer
Location:
chromosome: 9
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 9 NC_000009.12 (91146761..91147328)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 9 NC_060933.1 (103312860..103313427)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 9 NC_000009.11 (93909043..93909610)

Chromosome 9 - NC_000009.12Genomic Context describing neighboring genes Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr9:93762652-93763851 Neighboring gene NANOG hESC enhancer GRCh37_chr9:93765100-93765657 Neighboring gene long intergenic non-protein coding RNA 2957 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28579 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28580 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28581 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28582 Neighboring gene uncharacterized LOC100129316 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr9:93833179-93834084 Neighboring gene long intergenic non-protein coding RNA 2937 Neighboring gene long intergenic non-protein coding RNA 484 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28583 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28584 Neighboring gene Sharpr-MPRA regulatory region 1412 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_109153 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_109154 Neighboring gene Sharpr-MPRA regulatory region 6399 Neighboring gene uncharacterized LOC124902208 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr9:93956125-93956992 Neighboring gene Sharpr-MPRA regulatory region 9930 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 28586 Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr9:93979563-93980163 Neighboring gene Sharpr-MPRA regulatory region 15085 Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_109225 Neighboring gene AU RNA binding methylglutaconyl-CoA hydratase Neighboring gene Neanderthal introgressed variant-containing enhancer experimental_109279 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr9:94076941-94077442 Neighboring gene OCT4-H3K4me1 hESC enhancer GRCh37_chr9:94077443-94077942 Neighboring gene NANOG hESC enhancer GRCh37_chr9:94106111-94106766 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 20025

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_116696.1 

    Range
    101..668
    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_000009.12 Reference GRCh38.p14 Primary Assembly

    Range
    91146761..91147328
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060933.1 Alternate T2T-CHM13v2.0

    Range
    103312860..103313427
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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