Variant report

Variant	rs2302407
Chromosome Location	chr10:89475717-89475718
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	chr10:89475585..89478036-chr10:89480183..89481835,2	MCF-7	breast:

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

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

rs_ID	r²[population]
rs10788564	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10788566	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10887745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10887746	0.94[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10887748	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10887749	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10887750	1.00[CEU][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10887751	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11202525	0.88[EUR][1000 genomes]
rs11202526	1.00[CEU][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs11202527	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11202530	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11202557	0.83[YRI][hapmap]
rs11596283	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11813070	0.82[CEU][hapmap]
rs12414218	0.82[CEU][hapmap]
rs12414519	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1853168	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2302406	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34783121	0.86[EUR][1000 genomes]
rs3781187	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3781188	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3781189	0.82[CEU][hapmap]
rs3781190	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3815417	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]
rs4933459	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4933460	0.82[CEU][hapmap]
rs4933461	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4934363	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4934364	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4934365	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4934366	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4934367	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6586101	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6586102	0.83[YRI][hapmap]
rs7068030	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7073722	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7073724	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7079187	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7080206	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7080768	0.82[CEU][hapmap]
rs7081055	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7088594	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7097745	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7896505	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7898500	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7907791	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7908313	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7919607	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]
rs7920554	1.00[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7921017	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2302407	PAPSS2	cis	Muscle Skeletal	GTEx

Chromatin state (count:64 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89457600-89475800	Weak transcription	Right Ventricle	heart
2	chr10:89460400-89512000	Weak transcription	HSMM	muscle
3	chr10:89462200-89494800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr10:89462400-89482600	Weak transcription	Small Intestine	intestine
5	chr10:89462400-89482800	Weak transcription	Colonic Mucosa	Colon
6	chr10:89462800-89476800	Weak transcription	Fetal Muscle Trunk	muscle
7	chr10:89463000-89489400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
8	chr10:89463000-89494600	Weak transcription	Fetal Muscle Leg	muscle
9	chr10:89463000-89541400	Weak transcription	Rectal Smooth Muscle	rectum
10	chr10:89466200-89494600	Weak transcription	A549	lung
11	chr10:89466800-89494600	Weak transcription	Hela-S3	cervix
12	chr10:89467800-89480200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
13	chr10:89468200-89482800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr10:89468600-89475800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr10:89468600-89494000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
16	chr10:89468800-89483200	Strong transcription	Osteobl	bone
17	chr10:89469200-89477200	Strong transcription	NHLF	lung
18	chr10:89469200-89481800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr10:89469600-89477200	Strong transcription	Sigmoid Colon	Sigmoid Colon
20	chr10:89469600-89479000	Strong transcription	Rectal Mucosa Donor 29	rectum
21	chr10:89469800-89477800	Strong transcription	Fetal Intestine Large	intestine
22	chr10:89469800-89479600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr10:89470200-89480000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr10:89470200-89487000	Weak transcription	Aorta	Aorta
25	chr10:89470600-89493800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
26	chr10:89471000-89476400	Strong transcription	HUES6 Cell Line	embryonic stem cell
27	chr10:89471400-89476200	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr10:89472400-89503000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr10:89472800-89477000	Strong transcription	Rectal Mucosa Donor 31	rectum
30	chr10:89473000-89476200	Strong transcription	HUES64 Cell Line	embryonic stem cell
31	chr10:89473000-89477000	Strong transcription	HUES48 Cell Line	embryonic stem cell
32	chr10:89473000-89477200	Genic enhancers	HUVEC	blood vessel
33	chr10:89473000-89477200	Strong transcription	NH-A	brain
34	chr10:89473000-89482400	Weak transcription	Fetal Kidney	kidney
35	chr10:89473000-89577200	Weak transcription	Gastric	stomach
36	chr10:89473200-89476000	Strong transcription	Muscle Satellite Cultured Cells	--
37	chr10:89473600-89475800	Weak transcription	H1 Cell Line	embryonic stem cell
38	chr10:89473600-89494000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
39	chr10:89473800-89493600	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr10:89474000-89476200	Strong transcription	iPS-18 Cell Line	embryonic stem cell
41	chr10:89474200-89476000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr10:89474400-89476000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
43	chr10:89474400-89476000	Strong transcription	NHDF-Ad	bronchial
44	chr10:89474400-89476200	Strong transcription	iPS-20b Cell Line	embryonic stem cell
45	chr10:89474600-89475800	Weak transcription	Primary hematopoietic stem cells	blood
46	chr10:89474800-89477200	Strong transcription	Fetal Lung	lung
47	chr10:89475000-89476000	Enhancers	Brain Anterior Caudate	brain
48	chr10:89475000-89476800	Genic enhancers	Adipose Nuclei	Adipose
49	chr10:89475000-89478400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr10:89475200-89476200	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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