Variant report

Variant	rs11042559
Chromosome Location	chr11:9961331-9961332
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 100 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:97)

rs_ID	r²[population]
rs10743123	0.88[EUR][1000 genomes]
rs10770075	0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10770077	0.90[EUR][1000 genomes]
rs10770078	0.83[EUR][1000 genomes]
rs10840315	1.00[CHB][hapmap]
rs10840325	1.00[CHB][hapmap]
rs10840327	0.90[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840330	0.86[CEU][hapmap];0.90[EUR][1000 genomes]
rs10840333	0.86[CEU][hapmap];0.88[EUR][1000 genomes]
rs10840334	0.86[CEU][hapmap];0.88[EUR][1000 genomes]
rs10840337	0.90[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10840338	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10840344	0.91[AFR][1000 genomes]
rs11042496	1.00[CHB][hapmap]
rs11042500	1.00[CHB][hapmap]
rs11042511	1.00[CHB][hapmap]
rs11042526	1.00[CHB][hapmap]
rs11042543	0.85[CEU][hapmap];1.00[CHB][hapmap]
rs11042547	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042550	0.88[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042554	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042556	1.00[CHB][hapmap]
rs11042557	1.00[ASN][1000 genomes]
rs11042561	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042571	1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11042573	0.84[AFR][1000 genomes];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11042578	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11042579	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11042580	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11042593	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs11042595	0.90[CEU][hapmap];1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs11042601	0.90[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes]
rs11042609	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs11042615	0.91[CEU][hapmap]
rs11042618	0.90[CEU][hapmap];1.00[CHB][hapmap]
rs11042623	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs11042632	0.90[CEU][hapmap]
rs11042641	0.87[CEU][hapmap]
rs11524438	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11600251	0.91[CEU][hapmap]
rs11602465	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11602515	0.90[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11603440	1.00[AFR][1000 genomes];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11607582	1.00[CHB][hapmap]
rs12290996	0.85[EUR][1000 genomes]
rs12364676	0.91[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs12418212	0.93[CEU][hapmap];1.00[CHB][hapmap]
rs12419564	1.00[CHB][hapmap]
rs12419923	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12420734	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs12420950	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12421096	0.91[CEU][hapmap];1.00[CHB][hapmap]
rs12421179	0.80[CEU][hapmap];1.00[CHB][hapmap]
rs12421200	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12808226	1.00[CHB][hapmap]
rs1372807	0.82[CEU][hapmap]
rs17268632	1.00[CHB][hapmap]
rs17270804	1.00[CHB][hapmap]
rs17271847	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17355675	1.00[CHB][hapmap]
rs17355924	1.00[CHB][hapmap]
rs17356792	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2403226	0.88[EUR][1000 genomes]
rs2403227	0.87[CEU][hapmap];0.87[EUR][1000 genomes]
rs2403229	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs4576815	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs4625455	0.83[CEU][hapmap]
rs4909915	0.90[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4909916	0.85[AMR][1000 genomes]
rs4909917	0.86[CEU][hapmap];0.88[EUR][1000 genomes]
rs4910075	1.00[CHB][hapmap]
rs4910080	0.87[CEU][hapmap];1.00[CHB][hapmap];0.84[AMR][1000 genomes]
rs4910081	0.90[CEU][hapmap];1.00[CHB][hapmap];0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4910084	1.00[CHB][hapmap]
rs4910086	0.86[CEU][hapmap];0.87[EUR][1000 genomes]
rs4910505	1.00[CHB][hapmap]
rs55784591	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876943	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876944	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876946	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61876947	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61877048	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs61877049	0.91[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7114044	0.89[EUR][1000 genomes]
rs7114303	0.82[CEU][hapmap]
rs7116452	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7123820	0.82[EUR][1000 genomes]
rs7129288	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7130670	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131445	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7928959	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs7932661	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7938502	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs7938647	0.90[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs7938788	0.83[CEU][hapmap]
rs7943610	1.00[CHB][hapmap]
rs7950447	0.90[CEU][hapmap];1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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	nsv896988	chr11:9912052-10012511	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:9894400-9978600	Weak transcription	Left Ventricle	heart
2	chr11:9929200-9966800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:9943400-9980600	Weak transcription	Primary T cells from cord blood	blood
4	chr11:9944800-9969000	Weak transcription	Ovary	ovary
5	chr11:9945000-9967600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr11:9945400-9964800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr11:9950200-9980400	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr11:9952600-9966600	Weak transcription	Primary hematopoietic stem cells	blood
9	chr11:9952600-9968600	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr11:9952800-9967600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
11	chr11:9952800-9980200	Weak transcription	Aorta	Aorta
12	chr11:9952800-9980400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr11:9952800-9980600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
14	chr11:9952800-9980600	Weak transcription	Spleen	Spleen
15	chr11:9952800-9995200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr11:9953000-9962600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr11:9953000-9963600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr11:9953000-9963600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr11:9953000-9963600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr11:9953000-9969200	Weak transcription	Fetal Intestine Small	intestine
21	chr11:9953000-9978200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
22	chr11:9953000-9979600	Weak transcription	Fetal Stomach	stomach
23	chr11:9953000-9980200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
24	chr11:9953000-9980200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr11:9953000-9980400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr11:9953000-9980400	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr11:9953000-9980400	Weak transcription	Esophagus	oesophagus
28	chr11:9953200-9963600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr11:9958800-9978200	Weak transcription	Monocytes-CD14+_RO01746	blood
30	chr11:9959400-9963000	Weak transcription	NHDF-Ad	bronchial
31	chr11:9960600-9964400	Weak transcription	Osteobl	bone
32	chr11:9960600-9973400	Weak transcription	Fetal Heart	heart
33	chr11:9960800-9961400	Enhancers	HepG2	liver
34	chr11:9961000-9961400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr11:9961000-9961600	Enhancers	A549	lung

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