Variant report

Variant	rs2454539
Chromosome Location	chr10:53762921-53762922
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1015620	0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10740406	0.93[ASN][1000 genomes]
rs1903981	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2252101	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2339892	0.91[ASN][1000 genomes]
rs2447644	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2447645	0.93[ASN][1000 genomes]
rs2447648	0.91[ASN][1000 genomes]
rs2454538	0.92[AFR][1000 genomes]
rs2454541	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2454542	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2454543	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2454546	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2454552	0.93[ASN][1000 genomes]
rs2454554	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2454558	0.90[ASN][1000 genomes]
rs2454559	0.91[ASN][1000 genomes]
rs2454563	0.91[ASN][1000 genomes]
rs2454566	0.90[ASN][1000 genomes]
rs2454567	0.90[ASN][1000 genomes]
rs2454570	0.90[ASN][1000 genomes]
rs2879633	0.92[ASN][1000 genomes]
rs2927515	0.93[ASN][1000 genomes]
rs3104567	0.91[ASN][1000 genomes]
rs72801477	0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs961775	0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045692	chr10:53301450-54086823	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv519743	chr10:53721665-53773912	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv2750961	chr10:53726294-54010594	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv532194	chr10:53746620-54735550	Weak transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv1040754	chr10:53758289-53845925	Enhancers Weak transcription Strong transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:53752600-53766800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:53759200-53768000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr10:53760000-53766200	Weak transcription	Fetal Lung	lung
4	chr10:53761800-53763000	Enhancers	Colon Smooth Muscle	Colon
5	chr10:53762000-53763000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr10:53762200-53763200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr10:53762600-53763800	Enhancers	Fetal Stomach	stomach
8	chr10:53762800-53763000	Enhancers	Aorta	Aorta

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