Variant report

Variant	rs17013003
Chromosome Location	chr3:23361463-23361464
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:100)

rs_ID	r²[population]
rs1007332	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1011754	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10510537	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13059557	0.84[ASN][1000 genomes]
rs13063183	0.83[ASN][1000 genomes]
rs13063986	0.85[CHB][hapmap];0.87[ASN][1000 genomes]
rs13070865	0.84[ASN][1000 genomes]
rs13077333	0.88[ASN][1000 genomes]
rs13083654	0.86[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs13084327	0.88[CHB][hapmap];0.87[ASN][1000 genomes]
rs13087234	0.88[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs13089963	1.00[ASN][1000 genomes]
rs13090303	0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs13095736	0.88[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs13095887	1.00[JPT][hapmap]
rs13095960	0.97[ASN][1000 genomes]
rs13098494	0.88[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs1495132	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17012823	1.00[CEU][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes]
rs17012834	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17012844	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17012852	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17012861	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17012897	0.92[ASN][1000 genomes]
rs17012927	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17012943	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17012959	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17012969	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17012988	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17012998	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17013023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17013026	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17013029	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17013035	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17013049	0.81[JPT][hapmap];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17013104	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17013116	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17013125	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17013128	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17013152	1.00[CEU][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17013216	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013219	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013223	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013241	0.88[CHB][hapmap];0.90[JPT][hapmap]
rs17013245	0.88[CHB][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013286	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013314	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013320	1.00[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013322	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013333	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013344	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013348	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013383	1.00[CEU][hapmap];0.88[CHB][hapmap];0.85[JPT][hapmap];1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs17013390	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs17013398	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs17013406	1.00[CEU][hapmap];0.88[CHB][hapmap]
rs17345745	0.88[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs17404982	0.87[ASN][1000 genomes]
rs1985664	1.00[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2014132	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2291720	0.88[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs34011881	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34108997	0.87[ASN][1000 genomes]
rs34239585	0.89[ASN][1000 genomes]
rs34259979	0.89[ASN][1000 genomes]
rs34646795	1.00[ASN][1000 genomes]
rs34928302	0.84[ASN][1000 genomes]
rs34972244	0.84[ASN][1000 genomes]
rs35024744	0.88[ASN][1000 genomes]
rs35038414	0.83[ASN][1000 genomes]
rs35059447	0.87[ASN][1000 genomes]
rs35098118	0.83[ASN][1000 genomes]
rs35236373	0.87[ASN][1000 genomes]
rs35320722	0.84[ASN][1000 genomes]
rs35743404	0.89[ASN][1000 genomes]
rs36004369	0.85[ASN][1000 genomes]
rs36123653	0.84[ASN][1000 genomes]
rs57427415	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58844120	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs59034251	0.83[EUR][1000 genomes]
rs59365170	0.96[AMR][1000 genomes]
rs60709653	0.96[AMR][1000 genomes]
rs71322175	0.87[ASN][1000 genomes]
rs71322180	0.84[ASN][1000 genomes]
rs71322181	0.84[ASN][1000 genomes]
rs71322182	0.84[ASN][1000 genomes]
rs73044305	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs73044309	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs73044318	0.96[AMR][1000 genomes]
rs73044329	0.96[AMR][1000 genomes]
rs73044337	0.96[AMR][1000 genomes]
rs73044339	0.96[AMR][1000 genomes]
rs73050236	0.96[AMR][1000 genomes]
rs73050238	0.96[AMR][1000 genomes]
rs73050257	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs73050270	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73050276	1.00[AMR][1000 genomes]
rs983288	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9857217	0.84[ASN][1000 genomes]
rs9873329	0.88[CHB][hapmap];0.88[JPT][hapmap]

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	nsv1014701	chr3:23257658-23416094	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv589947	chr3:23277838-23403943	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1002823	chr3:23277838-23623083	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv589948	chr3:23287141-23390221	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1004417	chr3:23318797-23389422	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:23350600-23366400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
2	chr3:23350800-23362600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr3:23351000-23362400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr3:23353800-23362800	Weak transcription	Left Ventricle	heart
5	chr3:23355200-23365400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:23355800-23362800	Weak transcription	Esophagus	oesophagus
7	chr3:23355800-23366000	Weak transcription	Ovary	ovary
8	chr3:23356800-23365400	Weak transcription	Brain Anterior Caudate	brain
9	chr3:23356800-23367600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr3:23357000-23378800	Weak transcription	Brain Angular Gyrus	brain
11	chr3:23357600-23366600	Weak transcription	Brain Substantia Nigra	brain
12	chr3:23357800-23366000	Weak transcription	HSMM	muscle
13	chr3:23358400-23366400	Weak transcription	HSMMtube	muscle
14	chr3:23358600-23362000	Weak transcription	Psoas Muscle	Psoas
15	chr3:23358600-23362800	Weak transcription	Spleen	Spleen
16	chr3:23358800-23362600	Weak transcription	Brain Hippocampus Middle	brain
17	chr3:23358800-23362800	Weak transcription	Right Ventricle	heart
18	chr3:23359000-23362400	Weak transcription	Brain Inferior Temporal Lobe	brain
19	chr3:23359000-23363000	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr3:23359200-23366000	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr3:23361000-23361600	Enhancers	Fetal Stomach	stomach
22	chr3:23361200-23361600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
23	chr3:23361200-23361600	Enhancers	Primary B cells from peripheral blood	blood
24	chr3:23361400-23361600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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