Variant report

Variant	rs9556291
Chromosome Location	chr13:94102399-94102400
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1323972	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1323989	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1359198	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1408211	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1445266	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1445271	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1445272	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1445273	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1445275	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17234460	0.83[EUR][1000 genomes]
rs17300206	0.81[EUR][1000 genomes]
rs1900050	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1924383	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1947077	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1947079	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1980727	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1987681	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1987682	0.89[ASN][1000 genomes]
rs2038727	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2590549	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2590552	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2590558	0.86[ASN][1000 genomes]
rs2762082	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2762092	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2762120	0.80[EUR][1000 genomes]
rs2813618	0.94[ASN][1000 genomes]
rs2813619	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2813620	0.95[ASN][1000 genomes]
rs2813621	0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2813623	0.80[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2813627	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2813628	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2813631	0.96[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2813636	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2999497	0.91[ASN][1000 genomes]
rs2999498	0.86[ASN][1000 genomes]
rs2999500	0.95[ASN][1000 genomes]
rs2999501	0.83[ASN][1000 genomes]
rs4771875	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4773744	0.81[EUR][1000 genomes]
rs4773745	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4773746	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4773747	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72640517	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7329539	0.86[EUR][1000 genomes]
rs7338402	0.96[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7997302	0.81[EUR][1000 genomes]
rs876808	0.84[EUR][1000 genomes]
rs895193	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs895194	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9301881	0.95[ASN][1000 genomes]
rs9516228	0.81[EUR][1000 genomes]
rs9524038	0.81[EUR][1000 genomes]
rs9524039	0.81[EUR][1000 genomes]
rs9524045	0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9524051	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9524053	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9524058	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9524061	0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9524070	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9524075	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9556289	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9561340	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9561346	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9561347	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs973302	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs974542	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs974543	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs974544	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs996460	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs996461	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs996462	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs996463	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869070	chr13:93347616-94286933	Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1053035	chr13:93842576-94229732	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv541880	chr13:93842576-94229732	Active TSS Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv530636	chr13:93997311-94281707	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv916039	chr13:94035909-94191105	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1048843	chr13:94064931-94103524	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS	n/a	n/a	inside rSNPs	diseases
7	nsv562749	chr13:94083352-94263206	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv900920	chr13:94088707-94151937	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	esv1842896	chr13:94095160-94153194	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv948714	chr13:94100104-94699435	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:94092800-94104800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr13:94099000-94102600	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr13:94101800-94103000	Enhancers	Ovary	ovary
4	chr13:94102200-94102400	Enhancers	Esophagus	oesophagus
5	chr13:94102200-94102800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr13:94102200-94103000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr13:94102200-94103000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr13:94102200-94103000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr13:94102200-94103000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr13:94102200-94103000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr13:94102200-94103200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr13:94102200-94103400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

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