Variant report

Variant	rs7939662
Chromosome Location	chr11:10697904-10697905
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:10589192..10591636-chr11:10696263..10698924,2	K562	blood:
2	chr11:10693377..10695565-chr11:10697509..10699957,3	K562	blood:
3	chr11:10691286..10695244-chr11:10695981..10700197,4	MCF-7	breast:
4	chr11:10690084..10691721-chr11:10696494..10698749,2	K562	blood:

Variant related genes	Relation type
ENSG00000133800	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs10770129	0.83[JPT][hapmap]
rs10770130	0.87[ASN][1000 genomes]
rs10770132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10770133	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10840456	0.83[JPT][hapmap]
rs10840458	0.85[CHB][hapmap];0.88[JPT][hapmap];0.87[ASN][1000 genomes]
rs10840459	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10840460	0.85[ASN][1000 genomes]
rs10840461	0.85[ASN][1000 genomes]
rs10840462	0.85[ASN][1000 genomes]
rs10840463	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs10840464	0.85[ASN][1000 genomes]
rs10840465	0.85[ASN][1000 genomes]
rs10840466	0.85[ASN][1000 genomes]
rs10840467	0.84[ASN][1000 genomes]
rs10840468	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11042910	0.85[CHB][hapmap];0.89[JPT][hapmap];0.88[EUR][1000 genomes]
rs11042911	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11042913	0.85[ASN][1000 genomes]
rs11512010	0.87[EUR][1000 genomes]
rs12363422	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12420672	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12420675	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1390572	0.85[ASN][1000 genomes]
rs1390573	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1425149	0.85[ASN][1000 genomes]
rs1425150	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs1425151	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs1544862	0.85[ASN][1000 genomes]
rs1544863	0.85[CHB][hapmap];0.88[JPT][hapmap];0.85[ASN][1000 genomes]
rs16908157	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16908159	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16908162	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1845832	0.85[ASN][1000 genomes]
rs1874444	0.85[ASN][1000 genomes]
rs1895712	0.85[ASN][1000 genomes]
rs2098840	0.86[ASN][1000 genomes]
rs34554801	0.95[ASN][1000 genomes]
rs35040034	0.85[ASN][1000 genomes]
rs35165550	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4243916	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4909946	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4910164	0.88[EUR][1000 genomes]
rs4910166	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs722274	0.85[ASN][1000 genomes]
rs745336	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs750540	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7925193	1.00[CEU][hapmap];0.95[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7933525	0.85[ASN][1000 genomes]
rs7938027	0.80[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7939686	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs881870	1.00[CHB][hapmap];0.89[JPT][hapmap];0.90[ASN][1000 genomes]
rs903825	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs903826	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs903827	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs903828	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 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	nsv832063	chr11:10618485-10785281	ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	esv2753762	chr11:10688217-10701438	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv7676	chr11:10689144-10734139	Active TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:10694400-10698000	Enhancers	Primary monocytes fromperipheralblood	blood
2	chr11:10694600-10698400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr11:10694600-10698800	Enhancers	Primary hematopoietic stem cells short term culture	blood
4	chr11:10695000-10698000	Enhancers	NHLF	lung
5	chr11:10695400-10699000	Enhancers	Spleen	Spleen
6	chr11:10695600-10698600	Enhancers	Lung	lung
7	chr11:10695600-10698800	Enhancers	Left Ventricle	heart
8	chr11:10696400-10698800	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
9	chr11:10696600-10698600	Enhancers	Psoas Muscle	Psoas
10	chr11:10696600-10699600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr11:10696800-10702600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr11:10697000-10699400	Enhancers	Adipose Nuclei	Adipose
13	chr11:10697000-10699400	Enhancers	NHDF-Ad	bronchial
14	chr11:10697000-10700800	Weak transcription	Fetal Lung	lung
15	chr11:10697000-10713200	Weak transcription	Gastric	stomach
16	chr11:10697200-10698000	Enhancers	Pancreas	Pancrea
17	chr11:10697200-10698400	Weak transcription	Fetal Muscle Leg	muscle
18	chr11:10697200-10698800	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr11:10697200-10698800	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr11:10697200-10699400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr11:10697200-10701000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr11:10697200-10713800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
23	chr11:10697200-10714000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
24	chr11:10697400-10698000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
25	chr11:10697400-10698200	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr11:10697400-10698600	Enhancers	Skeletal Muscle Female	skeletal muscle
27	chr11:10697400-10698800	Enhancers	Colon Smooth Muscle	Colon
28	chr11:10697400-10698800	Genic enhancers	Stomach Smooth Muscle	stomach
29	chr11:10697400-10699000	Strong transcription	Fetal Stomach	stomach
30	chr11:10697400-10704200	Weak transcription	Ovary	ovary
31	chr11:10697400-10708400	Weak transcription	Duodenum Smooth Muscle	Duodenum
32	chr11:10697600-10699800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr11:10697600-10700000	Weak transcription	Small Intestine	intestine
34	chr11:10697600-10700200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr11:10697600-10712000	Weak transcription	Brain Anterior Caudate	brain
36	chr11:10697600-10712000	Weak transcription	Brain Hippocampus Middle	brain
37	chr11:10697800-10700800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr11:10697800-10701400	Genic enhancers	Aorta	Aorta
39	chr11:10697800-10709800	Strong transcription	Breast Myoepithelial Primary Cells	Breast

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