Variant report

Variant	rs7938946
Chromosome Location	chr11:4053145-4053146
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10742229	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10767827	0.81[YRI][hapmap]
rs11030814	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11602757	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1442725	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1465952	0.80[YRI][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2060822	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs2289570	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2412341	0.86[CHB][hapmap]
rs2898950	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2920137	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2920140	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2920141	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2920142	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2923947	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2923951	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2923952	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2923954	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2959060	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959061	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959064	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2959069	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2959071	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2959072	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959073	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2959076	0.85[CHB][hapmap]
rs35695744	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3794051	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3794052	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4910595	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910874	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910881	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7109811	0.88[AMR][1000 genomes]
rs7924858	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7926908	0.83[EUR][1000 genomes]
rs7927493	0.90[EUR][1000 genomes]
rs7930739	0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7940635	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7945918	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs894455	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs894457	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[YRI][hapmap];0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9735835	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9988893	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv896896	chr11:4010409-4185595	Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv1042719	chr11:4017541-4101609	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:4038200-4057200	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr11:4038200-4065200	Weak transcription	Left Ventricle	heart
3	chr11:4038400-4065400	Weak transcription	Esophagus	oesophagus
4	chr11:4039200-4056400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
5	chr11:4041800-4054600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr11:4045800-4053400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr11:4046000-4061400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr11:4047400-4053800	Weak transcription	Aorta	Aorta
9	chr11:4047400-4055400	Weak transcription	Brain Cingulate Gyrus	brain
10	chr11:4047400-4061400	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr11:4047800-4077400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
12	chr11:4048000-4060000	Weak transcription	NHDF-Ad	bronchial
13	chr11:4048000-4077600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr11:4048200-4053200	Weak transcription	Dnd41	blood
15	chr11:4048400-4054400	Weak transcription	Primary hematopoietic stem cells	blood
16	chr11:4048400-4054800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
17	chr11:4048400-4061400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
18	chr11:4048400-4061800	Weak transcription	Primary T helper cells PMA-I stimulated	--
19	chr11:4048400-4062000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
20	chr11:4048400-4063200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr11:4048400-4065800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr11:4048600-4077800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr11:4049000-4053400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
24	chr11:4049000-4053600	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr11:4049200-4053200	Weak transcription	Primary B cells from peripheral blood	blood
26	chr11:4049200-4053400	Weak transcription	Psoas Muscle	Psoas
27	chr11:4049400-4053400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr11:4049600-4053200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr11:4049600-4070600	Weak transcription	Thymus	Thymus
30	chr11:4049800-4065400	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr11:4050200-4070800	Weak transcription	Fetal Thymus	thymus
32	chr11:4051000-4080400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr11:4051200-4070200	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr11:4051400-4065400	Weak transcription	Pancreas	Pancrea
35	chr11:4052000-4053800	ZNF genes & repeats	Primary T cells from cord blood	blood
36	chr11:4052000-4053800	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
37	chr11:4052200-4054600	Weak transcription	Liver	Liver
38	chr11:4052800-4054000	Strong transcription	Primary B cells from cord blood	blood

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