Variant report

Variant	rs7908334
Chromosome Location	chr10:95966358-95966359
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10748621	0.88[CEU][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10748622	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10786154	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10786155	1.00[ASW][hapmap];0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10882403	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11187811	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11187815	0.85[YRI][hapmap]
rs12354980	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17093867	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2689693	0.90[GIH][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2689698	0.81[GIH][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2797998	0.81[GIH][hapmap];0.90[TSI][hapmap]
rs2797999	0.81[GIH][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap]
rs4545470	0.81[GIH][hapmap];0.89[MEX][hapmap];0.90[TSI][hapmap];0.82[AMR][1000 genomes]
rs58446977	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58573736	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:1 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036676	chr10:95851376-96103876	Strong transcription Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7908334	PDE6C	cis	cerebellum	SCAN

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:95929200-95966800	Weak transcription	Pancreas	Pancrea
2	chr10:95932600-95968000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr10:95933000-95972600	Weak transcription	Fetal Intestine Large	intestine
4	chr10:95941200-95979800	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr10:95943400-95973800	Weak transcription	Rectal Mucosa Donor 29	rectum
6	chr10:95959600-95972400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr10:95959800-95970600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:95959800-95972800	Weak transcription	A549	lung
9	chr10:95960000-95991800	Weak transcription	Duodenum Mucosa	Duodenum
10	chr10:95960600-95970200	Weak transcription	Fetal Muscle Trunk	muscle
11	chr10:95960800-95970800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr10:95962400-95966800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:95962600-95973600	Weak transcription	Cortex derived primary cultured neurospheres	brain
14	chr10:95964600-95967000	Enhancers	Fetal Lung	lung
15	chr10:95964600-95967000	Enhancers	Skeletal Muscle Female	skeletal muscle
16	chr10:95964800-95967000	Enhancers	Liver	Liver
17	chr10:95965000-95966400	Enhancers	Fetal Stomach	stomach
18	chr10:95965200-95967000	Enhancers	Skeletal Muscle Male	skeletal muscle
19	chr10:95965200-95972600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
20	chr10:95965400-95966400	Enhancers	Psoas Muscle	Psoas
21	chr10:95965400-95966600	Enhancers	Adipose Nuclei	Adipose
22	chr10:95965400-95966600	Enhancers	Stomach Mucosa	stomach
23	chr10:95965400-95967000	Enhancers	Lung	lung
24	chr10:95965400-95967000	Enhancers	Right Atrium	heart
25	chr10:95965400-95967000	Enhancers	Spleen	Spleen
26	chr10:95965600-95966800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
27	chr10:95965600-95967200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
28	chr10:95965600-95969600	Weak transcription	HSMMtube	muscle
29	chr10:95965800-95967600	ZNF genes & repeats	Fetal Intestine Small	intestine
30	chr10:95965800-95968000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr10:95965800-95968000	Weak transcription	Ovary	ovary
32	chr10:95965800-95969600	Weak transcription	Fetal Kidney	kidney
33	chr10:95965800-95969600	Weak transcription	Stomach Smooth Muscle	stomach
34	chr10:95965800-95970400	Weak transcription	Aorta	Aorta
35	chr10:95965800-95972800	Weak transcription	Colon Smooth Muscle	Colon
36	chr10:95966000-95966400	Enhancers	Right Ventricle	heart
37	chr10:95966000-95967000	Enhancers	Small Intestine	intestine
38	chr10:95966200-95966400	Weak transcription	Fetal Muscle Leg	muscle
39	chr10:95966200-95966600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
40	chr10:95966200-95966800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
41	chr10:95966200-95967000	Enhancers	Primary T cells fromperipheralblood	blood
42	chr10:95966200-95967000	Enhancers	GM12878-XiMat	blood
43	chr10:95966200-95970600	Weak transcription	Duodenum Smooth Muscle	Duodenum

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