Variant report

Variant	rs16907396
Chromosome Location	chr11:10047687-10047688
allele	C/G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10458929	0.81[ASN][1000 genomes]
rs10500715	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs10500717	0.93[CHB][hapmap];0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10770079	0.93[CHB][hapmap];0.94[JPT][hapmap];0.87[ASN][1000 genomes]
rs10840330	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs10840333	0.93[CHB][hapmap];0.93[JPT][hapmap]
rs10840334	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs10840345	0.84[ASN][1000 genomes]
rs10840347	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10840348	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10840352	0.89[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs10840361	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs10840362	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap]
rs10840370	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap]
rs11042558	1.00[CEU][hapmap];0.84[AMR][1000 genomes]
rs11042574	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes]
rs11042589	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042590	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11042591	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.92[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11042592	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042604	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.85[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11042605	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11042606	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11042610	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11042613	1.00[CEU][hapmap];0.93[CHB][hapmap];0.89[JPT][hapmap]
rs11042624	1.00[CEU][hapmap];0.93[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11042630	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11042634	1.00[EUR][1000 genomes]
rs11042635	1.00[EUR][1000 genomes]
rs11042639	1.00[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11042645	0.86[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs11042647	1.00[EUR][1000 genomes]
rs11042669	1.00[CEU][hapmap];0.86[CHB][hapmap];0.83[JPT][hapmap];1.00[EUR][1000 genomes]
rs11526057	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11530492	1.00[EUR][1000 genomes]
rs12221716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12222953	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes]
rs12283105	1.00[CEU][hapmap];0.94[JPT][hapmap]
rs12575719	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.83[EUR][1000 genomes]
rs1372807	0.81[CHB][hapmap];0.81[JPT][hapmap]
rs1442732	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[EUR][1000 genomes]
rs16907368	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2403226	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs2403227	0.92[CHB][hapmap];0.94[JPT][hapmap]
rs2403229	0.87[CHB][hapmap];0.83[JPT][hapmap]
rs4576815	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs4625455	0.87[CHB][hapmap];0.87[JPT][hapmap]
rs4909917	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs4910086	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs57420335	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58084362	0.84[AMR][1000 genomes]
rs59757006	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60362241	0.84[AMR][1000 genomes]
rs7106914	0.93[CHB][hapmap];0.94[JPT][hapmap]
rs7114303	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs7121617	0.83[EUR][1000 genomes]
rs7938788	0.87[CHB][hapmap];0.94[JPT][hapmap]
rs7946995	0.84[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	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:83 , 50 per page) page: 1 2

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	chr11:10001400-10066200	Weak transcription	Pancreas	Pancrea
5	chr11:10004200-10048600	Weak transcription	Brain Angular Gyrus	brain
6	chr11:10010600-10051200	Weak transcription	Ovary	ovary
7	chr11:10012600-10049000	Weak transcription	Fetal Kidney	kidney
8	chr11:10024200-10047800	Weak transcription	Osteobl	bone
9	chr11:10024800-10054000	Weak transcription	Hela-S3	cervix
10	chr11:10030600-10051400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr11:10030600-10054000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
12	chr11:10030600-10065800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr11:10032800-10049200	Weak transcription	Fetal Muscle Trunk	muscle
14	chr11:10034400-10047800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr11:10035200-10065800	Weak transcription	Stomach Smooth Muscle	stomach
16	chr11:10035400-10051200	Weak transcription	Psoas Muscle	Psoas
17	chr11:10035800-10052800	Weak transcription	Spleen	Spleen
18	chr11:10036000-10049000	Weak transcription	Placenta	Placenta
19	chr11:10036000-10055600	Weak transcription	NHEK	skin
20	chr11:10036200-10047800	Weak transcription	NHLF	lung
21	chr11:10036200-10062800	Weak transcription	Adipose Nuclei	Adipose
22	chr11:10037600-10048000	Weak transcription	Fetal Stomach	stomach
23	chr11:10037600-10049400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr11:10038000-10047800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr11:10040400-10065800	Weak transcription	HSMM	muscle
26	chr11:10040600-10049400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr11:10042000-10048800	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr11:10042000-10052200	Weak transcription	Esophagus	oesophagus
29	chr11:10042000-10052800	Weak transcription	Lung	lung
30	chr11:10042000-10053400	Weak transcription	Rectal Mucosa Donor 31	rectum
31	chr11:10042000-10055800	Weak transcription	HMEC	breast
32	chr11:10042200-10048400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr11:10042200-10049400	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr11:10042200-10049600	Weak transcription	Duodenum Mucosa	Duodenum
35	chr11:10042200-10054800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
36	chr11:10042200-10064400	Weak transcription	Fetal Intestine Small	intestine
37	chr11:10042200-10066000	Weak transcription	Fetal Muscle Leg	muscle
38	chr11:10042200-10066000	Weak transcription	Skeletal Muscle Male	skeletal muscle
39	chr11:10042200-10066200	Weak transcription	Rectal Smooth Muscle	rectum
40	chr11:10042400-10048800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr11:10042600-10066000	Weak transcription	Duodenum Smooth Muscle	Duodenum
42	chr11:10042800-10054200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr11:10043400-10049400	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr11:10043400-10051400	Weak transcription	Primary B cells from cord blood	blood
45	chr11:10043400-10051800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
46	chr11:10043400-10052000	Weak transcription	Primary T helper cells PMA-I stimulated	--
47	chr11:10043400-10065600	Weak transcription	Primary T helper cells fromperipheralblood	blood
48	chr11:10043600-10049000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
49	chr11:10043600-10049000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr11:10043600-10049000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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