Variant report

Variant	rs3815417
Chromosome Location	chr10:89474288-89474289
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10788564	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10788566	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10887745	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10887746	1.00[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10887748	1.00[CEU][hapmap];0.83[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10887749	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10887750	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10887751	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11202525	0.88[EUR][1000 genomes]
rs11202526	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.98[GIH][hapmap];0.93[JPT][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11202527	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11202530	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11596283	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11813070	0.82[CEU][hapmap]
rs12414218	0.82[CEU][hapmap]
rs12414519	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12778199	1.00[YRI][hapmap]
rs1819162	1.00[YRI][hapmap]
rs1853168	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2302406	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2302407	1.00[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.95[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34783121	0.86[EUR][1000 genomes]
rs3781187	1.00[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3781188	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3781189	0.82[CEU][hapmap]
rs3781190	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4933459	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4933460	0.82[CEU][hapmap]
rs4933461	1.00[CHB][hapmap];0.93[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4934363	1.00[CEU][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934364	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934365	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934366	1.00[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4934367	1.00[CEU][hapmap];0.86[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs6586101	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7068030	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7073722	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7073724	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7079187	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7080206	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7080768	0.82[CEU][hapmap]
rs7081055	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7088594	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7097745	1.00[CEU][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7896505	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7898500	1.00[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7907791	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7908313	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7919607	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7920554	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[CHD][hapmap];0.95[GIH][hapmap];0.93[JPT][hapmap];0.96[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7921017	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3815417	PAPSS2	cis	Muscle Skeletal	GTEx

Chromatin state (count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89453400-89475400	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr10:89457400-89475400	Weak transcription	Left Ventricle	heart
3	chr10:89457600-89475800	Weak transcription	Right Ventricle	heart
4	chr10:89460400-89512000	Weak transcription	HSMM	muscle
5	chr10:89462200-89494800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr10:89462400-89482600	Weak transcription	Small Intestine	intestine
7	chr10:89462400-89482800	Weak transcription	Colonic Mucosa	Colon
8	chr10:89462800-89476800	Weak transcription	Fetal Muscle Trunk	muscle
9	chr10:89463000-89489400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr10:89463000-89494600	Weak transcription	Fetal Muscle Leg	muscle
11	chr10:89463000-89541400	Weak transcription	Rectal Smooth Muscle	rectum
12	chr10:89463800-89475400	Weak transcription	Fetal Stomach	stomach
13	chr10:89465400-89474400	Weak transcription	NHDF-Ad	bronchial
14	chr10:89466200-89494600	Weak transcription	A549	lung
15	chr10:89466800-89494600	Weak transcription	Hela-S3	cervix
16	chr10:89467000-89475400	Weak transcription	Pancreas	Pancrea
17	chr10:89467800-89475600	Weak transcription	Primary neutrophils fromperipheralblood	blood
18	chr10:89467800-89480200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr10:89468200-89482800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr10:89468600-89475800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr10:89468600-89494000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr10:89468800-89483200	Strong transcription	Osteobl	bone
23	chr10:89469000-89475400	Strong transcription	Liver	Liver
24	chr10:89469200-89477200	Strong transcription	NHLF	lung
25	chr10:89469200-89481800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr10:89469600-89477200	Strong transcription	Sigmoid Colon	Sigmoid Colon
27	chr10:89469600-89479000	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr10:89469800-89477800	Strong transcription	Fetal Intestine Large	intestine
29	chr10:89469800-89479600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr10:89470200-89475400	Weak transcription	Lung	lung
31	chr10:89470200-89480000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
32	chr10:89470200-89487000	Weak transcription	Aorta	Aorta
33	chr10:89470400-89475200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr10:89470600-89493800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr10:89471000-89476400	Strong transcription	HUES6 Cell Line	embryonic stem cell
36	chr10:89471400-89474400	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
37	chr10:89471400-89476200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
38	chr10:89472400-89503000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr10:89472800-89475000	Strong transcription	Adipose Nuclei	Adipose
40	chr10:89472800-89477000	Strong transcription	Rectal Mucosa Donor 31	rectum
41	chr10:89473000-89476200	Strong transcription	HUES64 Cell Line	embryonic stem cell
42	chr10:89473000-89477000	Strong transcription	HUES48 Cell Line	embryonic stem cell
43	chr10:89473000-89477200	Genic enhancers	HUVEC	blood vessel
44	chr10:89473000-89477200	Strong transcription	NH-A	brain
45	chr10:89473000-89482400	Weak transcription	Fetal Kidney	kidney
46	chr10:89473000-89577200	Weak transcription	Gastric	stomach
47	chr10:89473200-89476000	Strong transcription	Muscle Satellite Cultured Cells	--
48	chr10:89473600-89475800	Weak transcription	H1 Cell Line	embryonic stem cell
49	chr10:89473600-89494000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
50	chr10:89473800-89474400	Weak transcription	iPS-20b Cell Line	embryonic stem cell

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