Variant report

Variant	rs3821413
Chromosome Location	chr3:56783806-56783807
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:56782398..56785543-chr3:56785588..56787979,3	K562	blood:

Extended variants
information (count: 15 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs1387713	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1565376	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1565377	0.84[ASW][hapmap];0.85[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2317248	0.82[AMR][1000 genomes]
rs4455300	0.84[EUR][1000 genomes]
rs4634082	0.82[AMR][1000 genomes]
rs4681763	0.87[AMR][1000 genomes]
rs4681765	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4681767	0.92[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6445815	0.82[AMR][1000 genomes]
rs6445820	0.89[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6805910	0.82[AMR][1000 genomes]
rs6807177	0.82[AMR][1000 genomes]
rs7629016	0.82[AMR][1000 genomes]
rs9857253	0.82[AMR][1000 genomes]

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs3821413	ARHGEF3	cis	cerebellum	SCAN
rs3821413	ARHGEF3	Cis_1M	lymphoblastoid	RTeQTL
rs3821413	CCDC66	cis	cerebellum	SCAN
rs3821413	C3orf51	cis	cerebellum	SCAN
rs3821413	CCDC66	cis	parietal	SCAN

Chromatin state (count:103 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:56757000-56786400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:56757600-56792200	Weak transcription	Hela-S3	cervix
3	chr3:56758600-56792200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr3:56759400-56784000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
5	chr3:56759800-56790400	Strong transcription	Dnd41	blood
6	chr3:56760800-56788800	Strong transcription	Fetal Thymus	thymus
7	chr3:56762000-56788400	Weak transcription	Colonic Mucosa	Colon
8	chr3:56763600-56784200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr3:56763800-56789000	Weak transcription	Small Intestine	intestine
10	chr3:56763800-56790200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr3:56763800-56792800	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr3:56764000-56786600	Weak transcription	Aorta	Aorta
13	chr3:56764000-56788800	Weak transcription	Fetal Heart	heart
14	chr3:56764000-56789000	Weak transcription	Psoas Muscle	Psoas
15	chr3:56764000-56793400	Weak transcription	Gastric	stomach
16	chr3:56764000-56815800	Weak transcription	Fetal Intestine Small	intestine
17	chr3:56766200-56788200	Weak transcription	Duodenum Mucosa	Duodenum
18	chr3:56766600-56785800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
19	chr3:56767400-56792600	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr3:56768400-56797600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:56769000-56785200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
22	chr3:56770800-56787200	Strong transcription	Primary T cells from cord blood	blood
23	chr3:56774400-56785000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr3:56774600-56784400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr3:56774600-56787400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
26	chr3:56775000-56792600	Weak transcription	HUES64 Cell Line	embryonic stem cell
27	chr3:56775400-56785400	Strong transcription	Primary B cells from peripheral blood	blood
28	chr3:56775800-56788800	Strong transcription	Thymus	Thymus
29	chr3:56777200-56784400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr3:56777200-56787400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
31	chr3:56777400-56788400	Strong transcription	Fetal Muscle Trunk	muscle
32	chr3:56778200-56785200	Strong transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr3:56778400-56784400	Strong transcription	Primary T helper naive cells from peripheral blood	blood
34	chr3:56778400-56786400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr3:56778600-56785400	Strong transcription	Primary T helper cells fromperipheralblood	blood
36	chr3:56778800-56785200	Strong transcription	Primary T cells fromperipheralblood	blood
37	chr3:56779000-56792600	Weak transcription	Placenta Amnion	Placenta Amnion
38	chr3:56779200-56785400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
39	chr3:56779600-56786200	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr3:56779600-56788400	Weak transcription	Rectal Smooth Muscle	rectum
41	chr3:56779600-56789200	Weak transcription	Skeletal Muscle Male	skeletal muscle
42	chr3:56779800-56788400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr3:56779800-56788400	Weak transcription	Ovary	ovary
44	chr3:56779800-56788800	Weak transcription	Esophagus	oesophagus
45	chr3:56779800-56789000	Weak transcription	Right Ventricle	heart
46	chr3:56780000-56787800	Weak transcription	Rectal Mucosa Donor 29	rectum
47	chr3:56780200-56784000	Weak transcription	Rectal Mucosa Donor 31	rectum
48	chr3:56781200-56787600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
49	chr3:56781600-56792200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr3:56781600-56795200	Weak transcription	Brain Germinal Matrix	brain

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