Variant report

Variant	rs10222681
Chromosome Location	chr3:56792755-56792756
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 16 )
Associated
traits (count: 2 )

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

rs_ID	r²[population]
rs11130548	0.84[EUR][1000 genomes]
rs2046823	0.85[JPT][hapmap]
rs2171855	0.95[EUR][1000 genomes]
rs2171857	0.93[CEU][hapmap];0.81[EUR][1000 genomes]
rs2171858	0.93[CEU][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes]
rs2276720	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3772219	0.85[JPT][hapmap]
rs4619759	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4681794	0.85[JPT][hapmap]
rs6794153	0.93[CEU][hapmap];0.87[TSI][hapmap];0.88[EUR][1000 genomes]
rs7627647	0.88[EUR][1000 genomes]
rs9812484	0.86[CEU][hapmap]
rs9825368	0.83[CHB][hapmap];0.92[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.80[YRI][hapmap];0.89[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs9851853	1.00[CEU][hapmap];0.81[YRI][hapmap];0.92[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs9874011	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9882898	0.93[CEU][hapmap];0.81[EUR][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10222681	CCDC66	cis	parietal	SCAN
rs10222681	C3orf51	cis	cerebellum	SCAN

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56763800-56792800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:56764000-56793400	Weak transcription	Gastric	stomach
3	chr3:56764000-56815800	Weak transcription	Fetal Intestine Small	intestine
4	chr3:56768400-56797600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr3:56781600-56795200	Weak transcription	Brain Germinal Matrix	brain
6	chr3:56782200-56795200	Weak transcription	Lung	lung
7	chr3:56783400-56802800	Weak transcription	Brain Cingulate Gyrus	brain
8	chr3:56783600-56802800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr3:56783800-56802800	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:56784600-56796400	Weak transcription	Fetal Brain Female	brain
11	chr3:56788000-56795600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr3:56789200-56796000	Weak transcription	Placenta	Placenta
13	chr3:56789200-56796400	Weak transcription	Rectal Smooth Muscle	rectum
14	chr3:56789200-56805800	Weak transcription	Stomach Smooth Muscle	stomach
15	chr3:56789400-56802800	Weak transcription	Ovary	ovary
16	chr3:56789400-56803200	Weak transcription	Fetal Muscle Trunk	muscle
17	chr3:56789400-56803200	Weak transcription	Fetal Stomach	stomach
18	chr3:56789600-56794800	Enhancers	Primary monocytes fromperipheralblood	blood
19	chr3:56789600-56801200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
20	chr3:56789800-56794800	Enhancers	Primary B cells from peripheral blood	blood
21	chr3:56790000-56793800	Enhancers	Primary B cells from cord blood	blood
22	chr3:56790000-56795000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr3:56790000-56796400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
24	chr3:56790000-56796600	Weak transcription	Brain Angular Gyrus	brain
25	chr3:56790200-56804600	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr3:56790400-56803200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
27	chr3:56790400-56803200	Weak transcription	Spleen	Spleen
28	chr3:56790600-56796400	Weak transcription	Fetal Heart	heart
29	chr3:56791000-56794000	Genic enhancers	Primary T cells fromperipheralblood	blood
30	chr3:56791000-56796200	Weak transcription	Psoas Muscle	Psoas
31	chr3:56791000-56796200	Weak transcription	Right Atrium	heart
32	chr3:56791000-56796400	Weak transcription	Right Ventricle	heart
33	chr3:56791200-56793600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
34	chr3:56791400-56796000	Weak transcription	Left Ventricle	heart
35	chr3:56791600-56792800	Genic enhancers	Primary T helper cells fromperipheralblood	blood
36	chr3:56792200-56792800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
37	chr3:56792200-56792800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr3:56792200-56792800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
39	chr3:56792200-56792800	Genic enhancers	Fetal Muscle Leg	muscle
40	chr3:56792200-56792800	Genic enhancers	Fetal Thymus	thymus
41	chr3:56792200-56792800	Enhancers	Pancreas	Pancrea
42	chr3:56792200-56792800	Enhancers	Sigmoid Colon	Sigmoid Colon
43	chr3:56792200-56792800	Enhancers	Stomach Mucosa	stomach
44	chr3:56792200-56792800	Flanking Active TSS	GM12878-XiMat	blood
45	chr3:56792200-56792800	Enhancers	NHLF	lung
46	chr3:56792200-56793000	Enhancers	Primary hematopoietic stem cells short term culture	blood
47	chr3:56792200-56793000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
48	chr3:56792200-56793000	Enhancers	Skeletal Muscle Male	skeletal muscle
49	chr3:56792200-56793200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr3:56792200-56793200	Enhancers	Duodenum Mucosa	Duodenum

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