Variant report

Variant	rs9888170
Chromosome Location	chr11:10029016-10029017
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs10160247	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs10160669	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs10160692	0.82[EUR][1000 genomes]
rs10500716	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10500718	0.82[EUR][1000 genomes]
rs10500719	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs10500720	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs11042575	0.82[CHB][hapmap];0.85[JPT][hapmap]
rs11042586	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11042650	0.82[EUR][1000 genomes]
rs11042652	0.82[EUR][1000 genomes]
rs11042653	0.82[EUR][1000 genomes]
rs11042656	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs11042657	0.82[EUR][1000 genomes]
rs11042659	0.82[EUR][1000 genomes]
rs11042661	0.82[EUR][1000 genomes]
rs11042663	0.84[EUR][1000 genomes]
rs11042664	1.00[CEU][hapmap];0.82[YRI][hapmap];0.84[EUR][1000 genomes]
rs11042666	0.92[CHD][hapmap]
rs1135372	0.90[EUR][1000 genomes]
rs1135374	0.90[EUR][1000 genomes]
rs11825114	0.82[ASN][1000 genomes]
rs12274104	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12275224	0.84[EUR][1000 genomes]
rs12277662	0.84[EUR][1000 genomes]
rs12278735	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12281409	0.84[EUR][1000 genomes]
rs12281526	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12282974	0.84[EUR][1000 genomes]
rs12284884	0.84[EUR][1000 genomes]
rs12286545	0.84[EUR][1000 genomes]
rs12286927	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12287386	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12288200	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12288275	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12288486	1.00[CEU][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs12288654	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];0.85[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.84[EUR][1000 genomes]
rs12291196	0.82[EUR][1000 genomes]
rs12291198	0.82[EUR][1000 genomes]
rs12291253	0.82[EUR][1000 genomes]
rs12293757	0.90[EUR][1000 genomes]
rs13377398	0.82[EUR][1000 genomes]
rs1442733	0.84[EUR][1000 genomes]
rs1442734	0.84[EUR][1000 genomes]
rs1442735	0.80[EUR][1000 genomes]
rs1442736	1.00[CEU][hapmap];0.82[YRI][hapmap];0.84[EUR][1000 genomes]
rs16907329	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs16907334	0.94[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs16907407	0.94[CHB][hapmap];0.97[CHD][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs16907410	0.92[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs16907417	0.94[CHB][hapmap];0.97[CHD][hapmap]
rs16907471	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16907481	0.94[CHD][hapmap]
rs16907483	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16907493	1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.90[MEX][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs16907496	0.90[EUR][1000 genomes]
rs16907498	0.86[EUR][1000 genomes]
rs16907500	0.90[EUR][1000 genomes]
rs16907503	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs16907509	0.90[EUR][1000 genomes]
rs16907527	0.82[EUR][1000 genomes]
rs16907528	0.82[EUR][1000 genomes]
rs16907533	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs16907544	0.82[EUR][1000 genomes]
rs16907552	0.82[EUR][1000 genomes]
rs16907554	0.82[EUR][1000 genomes]
rs16907561	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs16907564	0.82[EUR][1000 genomes]
rs16907568	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.82[EUR][1000 genomes]
rs16907575	0.84[EUR][1000 genomes]
rs1867137	0.94[CHD][hapmap]
rs1867138	0.89[CHD][hapmap]
rs2028575	0.82[EUR][1000 genomes]
rs2028576	1.00[CEU][hapmap];0.86[YRI][hapmap];0.82[EUR][1000 genomes]
rs2028577	0.82[EUR][1000 genomes]
rs2028578	0.80[EUR][1000 genomes]
rs2069214	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];0.85[GIH][hapmap];0.80[MEX][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.84[EUR][1000 genomes]
rs2119991	0.94[CHD][hapmap]
rs2278628	0.90[EUR][1000 genomes]
rs2278630	0.82[CEU][hapmap];0.82[YRI][hapmap];0.90[EUR][1000 genomes]
rs2278632	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.82[YRI][hapmap];0.90[EUR][1000 genomes]
rs2278633	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs2403261	0.87[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs2403263	0.84[ASN][1000 genomes]
rs2403267	0.93[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs2896513	1.00[CHB][hapmap];0.97[CHD][hapmap];0.90[JPT][hapmap];0.94[ASN][1000 genomes]
rs2896514	0.94[CHB][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs2896515	0.92[ASN][1000 genomes]
rs2896517	0.94[ASN][1000 genomes]
rs3178898	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs34124136	0.86[EUR][1000 genomes]
rs4910090	0.93[CHB][hapmap];0.85[JPT][hapmap]
rs4910092	0.94[CHB][hapmap];0.83[CHD][hapmap];0.85[JPT][hapmap];0.84[ASN][1000 genomes]
rs56850765	0.92[ASN][1000 genomes]
rs57520536	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs57521137	0.82[EUR][1000 genomes]
rs57595438	0.82[EUR][1000 genomes]
rs58842960	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs59479500	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60319025	0.82[EUR][1000 genomes]
rs61877012	0.83[ASN][1000 genomes]
rs61877018	0.85[ASN][1000 genomes]
rs61877040	0.99[ASN][1000 genomes]
rs61877043	0.88[ASN][1000 genomes]
rs61877045	0.92[ASN][1000 genomes]
rs6484012	0.86[EUR][1000 genomes]
rs67132348	0.87[ASN][1000 genomes]
rs7103902	0.80[JPT][hapmap]
rs7106234	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs7107302	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs7107916	0.88[CHB][hapmap];0.85[JPT][hapmap]
rs7113715	0.84[ASN][1000 genomes]
rs7128234	1.00[CHB][hapmap];0.85[JPT][hapmap];0.93[ASN][1000 genomes]
rs7128838	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7130610	0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs713402	0.87[CHB][hapmap];0.85[JPT][hapmap]
rs721008	1.00[CEU][hapmap];0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs73412899	0.82[EUR][1000 genomes]
rs73415015	0.86[EUR][1000 genomes]
rs7925889	0.88[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs7930920	0.84[ASN][1000 genomes]
rs7932484	0.94[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7935297	0.90[ASN][1000 genomes]
rs7936461	0.87[ASN][1000 genomes]
rs7938932	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7940348	0.84[ASN][1000 genomes]
rs7949164	0.84[ASN][1000 genomes]
rs7949322	0.82[ASN][1000 genomes]
rs9645625	0.82[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	nsv933855	chr11:9645441-10130519	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv896989	chr11:9951968-10059623	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
3	nsv553475	chr11:10019879-10059623	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv553476	chr11:10024311-10117435	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
5	nsv430319	chr11:10027543-10711224	Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	75 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9981400-10051600	Weak transcription	Aorta	Aorta
2	chr11:9985800-10049000	Weak transcription	Left Ventricle	heart
3	chr11:9991200-10060000	Weak transcription	Colon Smooth Muscle	Colon
4	chr11:9994800-10041800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr11:10001400-10066200	Weak transcription	Pancreas	Pancrea
6	chr11:10004200-10048600	Weak transcription	Brain Angular Gyrus	brain
7	chr11:10007600-10041800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr11:10010600-10030000	Weak transcription	Primary T cells from cord blood	blood
9	chr11:10010600-10051200	Weak transcription	Ovary	ovary
10	chr11:10012600-10049000	Weak transcription	Fetal Kidney	kidney
11	chr11:10018000-10031400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr11:10021000-10031400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
13	chr11:10021800-10030200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
14	chr11:10022600-10032400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr11:10023800-10033400	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr11:10024200-10047800	Weak transcription	Osteobl	bone
17	chr11:10024600-10041600	Weak transcription	HUVEC	blood vessel
18	chr11:10024800-10054000	Weak transcription	Hela-S3	cervix
19	chr11:10026200-10030000	ZNF genes & repeats	ES-I3 Cell Line	embryonic stem cell
20	chr11:10026600-10030000	Weak transcription	HSMMtube	muscle
21	chr11:10026600-10030400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr11:10026800-10030200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr11:10027200-10029200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
24	chr11:10027200-10029400	ZNF genes & repeats	Fetal Muscle Leg	muscle
25	chr11:10027200-10030400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr11:10027400-10030000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr11:10027400-10030000	ZNF genes & repeats	Primary hematopoietic stem cells	blood
28	chr11:10027600-10029400	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
29	chr11:10027600-10030800	ZNF genes & repeats	Fetal Stomach	stomach
30	chr11:10027800-10030600	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
31	chr11:10028000-10029200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
32	chr11:10028800-10029200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr11:10028800-10030600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr11:10029000-10030600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
35	chr11:10029000-10030600	ZNF genes & repeats	Foreskin Melanocyte Primary Cells skin01	Skin

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