Variant report

Variant	rs7919607
Chromosome Location	chr10:89469589-89469590
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:89465183..89467317-chr10:89467935..89471420,3	MCF-7	breast:
2	chr10:89463631..89465244-chr10:89468620..89471023,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10788564	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10788566	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10887745	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10887746	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10887748	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10887749	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10887750	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10887751	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11202525	0.86[EUR][1000 genomes]
rs11202526	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11202527	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11202530	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11596283	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11813070	0.82[CEU][hapmap]
rs12414218	0.81[CEU][hapmap]
rs12414519	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12771188	0.82[YRI][hapmap]
rs1853168	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2302406	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2302407	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34783121	0.85[EUR][1000 genomes]
rs3781187	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3781188	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3781189	0.81[CEU][hapmap]
rs3781190	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3815417	1.00[CEU][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4933459	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4933460	0.82[CEU][hapmap]
rs4933461	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4934363	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4934364	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4934365	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4934366	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4934367	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6586101	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7068030	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7073722	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7073724	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7079187	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7080206	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7080768	0.82[CEU][hapmap]
rs7081055	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7088594	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7097745	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7896505	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7898500	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7907791	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7908313	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7920554	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7921017	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7919607	PAPSS2	cis	Muscle Skeletal	GTEx

Chromatin state (count:53 , 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	chr10:89461600-89472800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr10:89462200-89494800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr10:89462400-89469600	Weak transcription	Rectal Mucosa Donor 29	rectum
8	chr10:89462400-89482600	Weak transcription	Small Intestine	intestine
9	chr10:89462400-89482800	Weak transcription	Colonic Mucosa	Colon
10	chr10:89462800-89469600	Weak transcription	Sigmoid Colon	Sigmoid Colon
11	chr10:89462800-89469800	Weak transcription	Fetal Intestine Large	intestine
12	chr10:89462800-89471000	Weak transcription	HUES6 Cell Line	embryonic stem cell
13	chr10:89462800-89476800	Weak transcription	Fetal Muscle Trunk	muscle
14	chr10:89463000-89472000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
15	chr10:89463000-89472000	Weak transcription	Duodenum Mucosa	Duodenum
16	chr10:89463000-89489400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
17	chr10:89463000-89494600	Weak transcription	Fetal Muscle Leg	muscle
18	chr10:89463000-89541400	Weak transcription	Rectal Smooth Muscle	rectum
19	chr10:89463400-89470200	Genic enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr10:89463800-89475400	Weak transcription	Fetal Stomach	stomach
21	chr10:89464200-89471400	Weak transcription	Fetal Lung	lung
22	chr10:89465400-89469600	Weak transcription	HUVEC	blood vessel
23	chr10:89465400-89471000	Weak transcription	Muscle Satellite Cultured Cells	--
24	chr10:89465400-89474400	Weak transcription	NHDF-Ad	bronchial
25	chr10:89465800-89471400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr10:89465800-89474200	Weak transcription	Placenta	Placenta
27	chr10:89466200-89494600	Weak transcription	A549	lung
28	chr10:89466600-89469800	Weak transcription	Lung	lung
29	chr10:89466800-89494600	Weak transcription	Hela-S3	cervix
30	chr10:89467000-89469800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr10:89467000-89473400	Weak transcription	Fetal Intestine Small	intestine
32	chr10:89467000-89475400	Weak transcription	Pancreas	Pancrea
33	chr10:89467600-89473000	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr10:89467800-89473200	Weak transcription	H1 Cell Line	embryonic stem cell
35	chr10:89467800-89474000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr10:89467800-89475600	Weak transcription	Primary neutrophils fromperipheralblood	blood
37	chr10:89467800-89480200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr10:89468000-89473400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
39	chr10:89468200-89482800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
40	chr10:89468600-89475800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr10:89468600-89494000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr10:89468800-89469600	Weak transcription	Adipose Nuclei	Adipose
43	chr10:89468800-89483200	Strong transcription	Osteobl	bone
44	chr10:89469000-89469800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
45	chr10:89469000-89470400	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr10:89469000-89475400	Strong transcription	Liver	Liver
47	chr10:89469200-89469600	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr10:89469200-89469800	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr10:89469200-89470200	Strong transcription	Ovary	ovary
50	chr10:89469200-89471600	Strong transcription	NH-A	brain

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