Variant report

Variant	rs2403292
Chromosome Location	chr11:10213066-10213067
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10770103	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10840359	0.82[EUR][1000 genomes]
rs10840375	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10840377	1.00[CEU][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11042593	0.84[EUR][1000 genomes]
rs11042595	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs11042601	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11042609	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11042615	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11042618	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11042623	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs11042627	0.82[EUR][1000 genomes]
rs11042632	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11042641	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11042683	1.00[CHB][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11600251	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11600489	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11606561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11607682	0.89[EUR][1000 genomes]
rs11607703	0.89[EUR][1000 genomes]
rs12360783	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12362060	0.95[CEU][hapmap];1.00[CHB][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12362938	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12364676	0.84[EUR][1000 genomes]
rs12416695	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12417184	0.89[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12418212	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs12418619	0.89[EUR][1000 genomes]
rs12420122	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12420734	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs12421096	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs12421179	0.90[CEU][hapmap];0.89[EUR][1000 genomes]
rs12421931	0.89[EUR][1000 genomes]
rs13306112	0.80[YRI][hapmap]
rs1372807	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs1372808	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1372811	1.00[CHB][hapmap]
rs1442737	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17359113	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1822291	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1822292	0.95[CEU][hapmap];1.00[CHB][hapmap];0.80[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1822293	1.00[CHB][hapmap]
rs1867135	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2044142	0.91[YRI][hapmap]
rs2197171	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs28731164	0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs34683105	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4271380	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4281477	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4385889	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4478985	0.80[EUR][1000 genomes]
rs4519084	0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4529876	0.81[EUR][1000 genomes]
rs4625455	0.91[CEU][hapmap]
rs4643073	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4910095	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4910098	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4910111	1.00[CHB][hapmap]
rs55788918	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55796222	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs56853694	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877048	0.86[EUR][1000 genomes]
rs61877049	0.86[EUR][1000 genomes]
rs61878582	0.90[EUR][1000 genomes]
rs61878587	0.89[EUR][1000 genomes]
rs61878622	0.89[EUR][1000 genomes]
rs61878636	0.89[EUR][1000 genomes]
rs61889838	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7104093	1.00[CEU][hapmap]
rs7110151	1.00[CHB][hapmap]
rs7114303	0.91[CEU][hapmap];0.80[EUR][1000 genomes]
rs7123453	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7123820	0.87[EUR][1000 genomes]
rs7124401	1.00[CHB][hapmap]
rs7924875	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7928959	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs7935774	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7935934	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7938491	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938502	1.00[CEU][hapmap];0.84[EUR][1000 genomes]
rs7938647	1.00[CEU][hapmap];0.87[EUR][1000 genomes]
rs7938788	0.91[CEU][hapmap];0.81[EUR][1000 genomes]
rs7945980	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7946995	0.81[EUR][1000 genomes]
rs7947306	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7948215	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7950447	1.00[CEU][hapmap];0.89[EUR][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	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
2	nsv1039636	chr11:10126747-10280570	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10178200-10213400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr11:10188000-10222800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr11:10202400-10216000	Weak transcription	Fetal Intestine Small	intestine
4	chr11:10203600-10215600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
5	chr11:10203600-10220000	Weak transcription	NH-A	brain
6	chr11:10203800-10223800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr11:10204400-10217200	Weak transcription	Fetal Intestine Large	intestine
8	chr11:10204600-10217000	Weak transcription	Placenta	Placenta
9	chr11:10205400-10214200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr11:10205600-10217000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr11:10205800-10220600	Weak transcription	A549	lung
12	chr11:10206200-10216600	Weak transcription	Primary hematopoietic stem cells	blood
13	chr11:10207400-10216200	Weak transcription	Adipose Nuclei	Adipose
14	chr11:10207400-10216600	Weak transcription	Fetal Lung	lung
15	chr11:10207800-10218600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr11:10208000-10229000	Weak transcription	Aorta	Aorta
17	chr11:10208400-10213200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr11:10208400-10213200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr11:10208400-10213400	Weak transcription	Monocytes-CD14+_RO01746	blood
20	chr11:10208400-10216600	Weak transcription	Skeletal Muscle Female	skeletal muscle
21	chr11:10208400-10217200	Weak transcription	HSMM	muscle
22	chr11:10208600-10213400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr11:10208600-10213800	Weak transcription	Primary T cells from cord blood	blood
24	chr11:10208800-10213600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr11:10208800-10218600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr11:10208800-10229400	Weak transcription	NHLF	lung
27	chr11:10209000-10213200	Weak transcription	Osteobl	bone
28	chr11:10209000-10213800	Weak transcription	Stomach Mucosa	stomach
29	chr11:10209000-10215600	Weak transcription	Sigmoid Colon	Sigmoid Colon
30	chr11:10209000-10223200	Weak transcription	Left Ventricle	heart
31	chr11:10209200-10213600	Weak transcription	Ovary	ovary
32	chr11:10209400-10219000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
33	chr11:10209600-10214200	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr11:10210000-10219000	Weak transcription	HUES48 Cell Line	embryonic stem cell
35	chr11:10210600-10216200	Weak transcription	HepG2	liver
36	chr11:10211000-10224600	Weak transcription	Primary B cells from cord blood	blood
37	chr11:10211800-10215200	Weak transcription	Liver	Liver
38	chr11:10211800-10215600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr11:10211800-10216600	Weak transcription	HUVEC	blood vessel
40	chr11:10212400-10213200	Strong transcription	NHDF-Ad	bronchial
41	chr11:10212600-10213800	Weak transcription	Primary monocytes fromperipheralblood	blood
42	chr11:10212600-10215000	Weak transcription	Primary T helper cells fromperipheralblood	blood
43	chr11:10213000-10214000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr11:10213000-10214200	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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