Variant report

Variant	rs11715283
Chromosome Location	chr3:105209768-105209769
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 81 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs11710166	1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11710857	0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11713535	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11714275	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11714277	1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11716035	0.88[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11718405	1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11718457	1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11719817	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1898655	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1955135	0.86[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2200473	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2399049	0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2895300	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs34029528	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3772542	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3772544	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3772547	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs481177	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs526297	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57986655	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59322590	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs598425	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs61522255	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6771935	1.00[CHB][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6771987	0.85[CEU][hapmap];1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6786815	1.00[CHB][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6794273	0.85[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73175407	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73175433	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73175435	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73175442	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73175449	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73175451	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73175463	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73175491	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73177465	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177470	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177478	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177489	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73177494	0.84[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73179378	0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73179384	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181374	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181376	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181380	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181387	0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181395	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181396	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181397	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73181401	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73183103	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73183108	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183112	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183114	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183115	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183185	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183186	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183187	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183188	0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73183198	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73185106	0.85[EUR][1000 genomes]
rs73185114	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73185115	0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73189021	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73189028	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73189034	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73189060	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73192717	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73192730	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73192733	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73192737	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73192751	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73192754	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs73192770	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs901280	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs978436	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv525071	chr3:105004853-105409321	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv829650	chr3:105070893-105255036	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv534224	chr3:105141696-105404293	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
4	nsv829651	chr3:105203424-105402136	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:105193000-105215400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr3:105193200-105213600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr3:105201200-105214600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr3:105205400-105213800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
5	chr3:105208800-105210200	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
6	chr3:105209000-105210200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:105209000-105210200	ZNF genes & repeats	A549	lung
8	chr3:105209000-105210400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
9	chr3:105209000-105210600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
10	chr3:105209200-105210000	ZNF genes & repeats	Brain Anterior Caudate	brain
11	chr3:105209200-105210200	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
12	chr3:105209200-105210400	ZNF genes & repeats	Brain Cingulate Gyrus	brain
13	chr3:105209200-105210600	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
14	chr3:105209200-105210800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
15	chr3:105209400-105209800	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr3:105209400-105209800	Enhancers	Placenta Amnion	Placenta Amnion
17	chr3:105209400-105210000	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr3:105209400-105210000	ZNF genes & repeats	Dnd41	blood
19	chr3:105209400-105210200	ZNF genes & repeats	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr3:105209400-105210200	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
21	chr3:105209400-105210200	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:105209400-105210200	ZNF genes & repeats	Primary B cells from cord blood	blood
23	chr3:105209400-105210200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr3:105209400-105210200	ZNF genes & repeats	GM12878-XiMat	blood
25	chr3:105209400-105210200	ZNF genes & repeats	HSMM	muscle
26	chr3:105209400-105210200	ZNF genes & repeats	NH-A	brain
27	chr3:105209400-105210400	Strong transcription	Muscle Satellite Cultured Cells	--
28	chr3:105209400-105210400	ZNF genes & repeats	Liver	Liver
29	chr3:105209400-105210600	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
30	chr3:105209400-105210600	ZNF genes & repeats	Brain Inferior Temporal Lobe	brain
31	chr3:105209600-105210000	ZNF genes & repeats	Gastric	stomach
32	chr3:105209600-105210200	ZNF genes & repeats	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr3:105209600-105210200	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
34	chr3:105209600-105210200	ZNF genes & repeats	Foreskin Keratinocyte Primary Cells skin02	Skin
35	chr3:105209600-105210200	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
36	chr3:105209600-105210200	ZNF genes & repeats	Aorta	Aorta
37	chr3:105209600-105210200	ZNF genes & repeats	Fetal Stomach	stomach
38	chr3:105209600-105210200	ZNF genes & repeats	Lung	lung
39	chr3:105209600-105210400	ZNF genes & repeats	Brain Hippocampus Middle	brain
40	chr3:105209600-105211000	Weak transcription	Fetal Heart	heart

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