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LOC127268090 NANOG hESC enhancer GRCh37_chr1:23697210-23697795 [ Homo sapiens (human) ]

Gene ID: 127268090, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127268090
Gene description
NANOG hESC enhancer GRCh37_chr1:23697210-23697795
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, Oct 2022]
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Genomic context

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See LOC127268090 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (23370717..23371302)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (23203895..23204480)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene heterogeneous nuclear ribonucleoprotein R Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 409 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 410 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:23670710-23671294 Neighboring gene MIR1 retrotransposon enhancer-blocking element Neighboring gene OCT4-NANOG hESC enhancer GRCh37_chr1:23683836-23684671 Neighboring gene Sharpr-MPRA regulatory region 11811 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 359 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 360 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 361 Neighboring gene ZNF436 antisense RNA 1 Neighboring gene zinc finger protein 436 Neighboring gene Sharpr-MPRA regulatory region 9848 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 362 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:23709609-23709825 Neighboring gene transcription elongation factor A3 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 363 Neighboring gene NANOG hESC enhancer GRCh37_chr1:23745635-23746193 Neighboring gene uncharacterized LOC124903875 Neighboring gene ArfGAP with SH3 domain, ankyrin repeat and PH domain 3

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_089951.1 

    Range
    101..686
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    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    23370717..23371302
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 PATCHES

Genomic

  1. NW_014040926.1 Reference GRCh38.p14 PATCHES

    Range
    140696..141281
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    23203895..23204480
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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