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LOC127276560 NANOG-H3K4me1 hESC enhancer GRCh37_chr2:242946994-242947615 [ Homo sapiens (human) ]

Gene ID: 127276560, updated on 10-Oct-2023

Summary

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Gene symbol
LOC127276560
Gene description
NANOG-H3K4me1 hESC enhancer GRCh37_chr2:242946994-242947615
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, Oct 2022]
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Genomic context

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See LOC127276560 in Genome Data Viewer
Location:
chromosome: 2
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 2 NC_000002.12 (242004843..242005464)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 2 NC_060926.1 (242514337..242514958)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene long intergenic non-protein coding RNA 1237 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:242842086-242842730 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:242842731-242843374 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:242843375-242844020 Neighboring gene family with sequence similarity 240 member C Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:242884151-242884650 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:242892163-242892811 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:242892812-242893459 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:242907927-242908434 Neighboring gene long intergenic non-protein coding RNA 1238 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:242927157-242927693 Neighboring gene Neanderthal introgressed variant-containing enhancers experimental_58196 and experimental_58198 Neighboring gene uncharacterized FLJ38379 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr2:242975433-242975936 Neighboring gene uncharacterized LOC105373980 Neighboring gene long intergenic non-protein coding RNA 1880 Neighboring gene Sharpr-MPRA regulatory region 9157 Neighboring gene OCT4-NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:243005518-243006194 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr2:243006195-243006872

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_098403.1 

    Range
    101..722
    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_000002.12 Reference GRCh38.p14 Primary Assembly

    Range
    242004843..242005464
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_1

Genomic

  1. NT_187523.1 Reference GRCh38.p14 ALT_REF_LOCI_1

    Range
    43538..44159
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    GenBank, FASTA, Sequence Viewer (Graphics)

Reference GRCh38.p14 ALT_REF_LOCI_2

Genomic

  1. NT_187647.1 Reference GRCh38.p14 ALT_REF_LOCI_2

    Range
    43538..44159
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060926.1 Alternate T2T-CHM13v2.0

    Range
    242514337..242514958
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    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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