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LOC127268405 NANOG hESC enhancer GRCh37_chr1:29133560-29134067 [ Homo sapiens (human) ]

Gene ID: 127268405, updated on 12-Sep-2024

Summary

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Gene symbol
LOC127268405
Gene description
NANOG hESC enhancer GRCh37_chr1:29133560-29134067
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 LOC127268405 in Genome Data Viewer
Location:
chromosome: 1
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 1 NC_000001.11 (28807048..28807555)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 1 NC_060925.1 (28649044..28649551)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 1 NC_000001.10 (29133560..29134067)

Chromosome 1 - NC_000001.11Genomic Context describing neighboring genes Neighboring gene small Cajal body-specific RNA 24 Neighboring gene glucocorticoid modulatory element binding protein 1 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:29061369-29062268 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 604 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr1:29063168-29064066 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:29069801-29070309 Neighboring gene ReSE screen-validated silencer GRCh37_chr1:29074507-29074730 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:29075305-29075826 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:29075827-29076347 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:29081023-29081522 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:29089259-29089760 Neighboring gene YTH N6-methyladenosine RNA binding protein F2 Neighboring gene Sharpr-MPRA regulatory region 15715 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 606 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:29141619-29142120 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:29161670-29162170 Neighboring gene H3K27ac hESC enhancer GRCh37_chr1:29162171-29162671 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr1:29181461-29181962 Neighboring gene opioid receptor delta 1 Neighboring gene GATA motif-containing MPRA enhancer 282 Neighboring gene CRISPRi-validated cis-regulatory element chr1.4082 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 548 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 549 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 550 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 551 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 608 Neighboring gene uncharacterized LOC124903886 Neighboring gene erythrocyte membrane protein band 4.1

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_090266.1 

    Range
    101..608
    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_000001.11 Reference GRCh38.p14 Primary Assembly

    Range
    28807048..28807555
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    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060925.1 Alternate T2T-CHM13v2.0

    Range
    28649044..28649551
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version

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