Variant report

Variant	rs13085309
Chromosome Location	chr3:17027205-17027206
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11549706	0.93[CEU][hapmap];1.00[CHD][hapmap];0.86[MEX][hapmap];0.81[TSI][hapmap]
rs13059760	1.00[CEU][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13062572	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[TSI][hapmap];1.00[ASN][1000 genomes]
rs13066204	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13073804	0.92[TSI][hapmap]
rs13089569	0.93[CEU][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.86[MEX][hapmap];0.81[TSI][hapmap]
rs13096536	0.85[EUR][1000 genomes]
rs13097797	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17200543	0.92[TSI][hapmap]
rs17272754	0.88[TSI][hapmap]
rs17272810	0.93[CEU][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs17272817	0.85[EUR][1000 genomes]
rs17272831	0.93[CEU][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs28498854	0.82[EUR][1000 genomes]
rs34704046	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34824028	0.85[EUR][1000 genomes]
rs35100600	0.84[EUR][1000 genomes]
rs36118680	1.00[ASN][1000 genomes]
rs3935970	0.93[CEU][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs4290789	0.85[EUR][1000 genomes]
rs56060350	0.85[EUR][1000 genomes]
rs62247182	0.85[EUR][1000 genomes]
rs62247257	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6789069	0.87[CEU][hapmap];0.88[TSI][hapmap];0.84[EUR][1000 genomes]
rs71627166	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7616589	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs7652293	0.93[CEU][hapmap];0.88[TSI][hapmap];0.85[EUR][1000 genomes]
rs7652874	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9834723	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs9845137	0.93[CEU][hapmap];0.86[EUR][1000 genomes]
rs9876768	0.93[CEU][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs13085309	COLQ	cis	parietal	SCAN
rs13085309	SGOL1	cis	cerebellum	SCAN
rs13085309	TMEM43	cis	cerebellum	SCAN
rs13085309	SATB1	cis	parietal	SCAN

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:17014800-17033600	Weak transcription	Primary T cells from cord blood	blood
2	chr3:17014800-17038800	Weak transcription	Primary B cells from cord blood	blood
3	chr3:17016400-17032200	Weak transcription	Primary B cells from peripheral blood	blood
4	chr3:17017000-17028600	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr3:17017000-17029800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr3:17017400-17027400	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr3:17017400-17027400	Weak transcription	Right Atrium	heart
8	chr3:17019000-17029800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr3:17020400-17034000	Weak transcription	Small Intestine	intestine
10	chr3:17020600-17028400	Weak transcription	Liver	Liver
11	chr3:17021800-17027400	Weak transcription	Left Ventricle	heart
12	chr3:17024000-17029600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
13	chr3:17024200-17028200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr3:17024200-17028200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr3:17024200-17034200	Weak transcription	Primary monocytes fromperipheralblood	blood
16	chr3:17024800-17028600	Weak transcription	Skeletal Muscle Female	skeletal muscle
17	chr3:17024800-17033400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
18	chr3:17025400-17033800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:17026600-17027600	Enhancers	Right Ventricle	heart
20	chr3:17026800-17028000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
21	chr3:17026800-17041200	Enhancers	Primary T helper cells PMA-I stimulated	--
22	chr3:17027200-17027400	Enhancers	Primary T killer memory cells from peripheral blood	blood
23	chr3:17027200-17027600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
24	chr3:17027200-17027600	Enhancers	Primary T helper cells fromperipheralblood	blood
25	chr3:17027200-17027800	Enhancers	Ovary	ovary
26	chr3:17027200-17028200	Enhancers	Psoas Muscle	Psoas
27	chr3:17027200-17029200	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr3:17027200-17033800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr3:17027200-17033800	Weak transcription	Fetal Heart	heart
30	chr3:17027200-17035400	Weak transcription	Fetal Brain Female	brain

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