Variant report

Variant	rs9633302
Chromosome Location	chr1:172223606-172223607
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:172223524..172225386-chr1:172246377..172249330,2	MCF-7	breast:
2	chr1:172221315..172226024-chr1:172325981..172331432,5	MCF-7	breast:
3	chr1:172223489..172225833-chr1:172289738..172293302,4	MCF-7	breast:
4	chr1:172217494..172219854-chr1:172223387..172225787,2	MCF-7	breast:
5	chr1:172223432..172226037-chr1:172367106..172368941,2	MCF-7	breast:
6	chr1:172223330..172225504-chr1:172229542..172231885,2	MCF-7	breast:

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10752923	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12096225	0.91[ASN][1000 genomes]
rs12097276	0.88[ASN][1000 genomes]
rs2251991	1.00[CHB][hapmap];0.87[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2254703	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254720	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2254810	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2255076	1.00[ASW][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.82[MEX][hapmap];0.92[TSI][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2255460	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2255707	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2256059	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2422076	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2422077	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2586390	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2586395	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2586396	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2586398	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs2586399	0.85[ASN][1000 genomes]
rs2586400	0.91[ASN][1000 genomes]
rs2586402	0.91[ASN][1000 genomes]
rs2586405	0.91[ASN][1000 genomes]
rs2586406	0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2586409	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2586414	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2586417	0.91[ASN][1000 genomes]
rs2586418	0.91[ASN][1000 genomes]
rs2586419	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2586422	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2586423	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2586425	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2586426	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757485	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2757486	0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2757487	0.91[ASN][1000 genomes]
rs2757488	0.91[ASN][1000 genomes]
rs2757489	1.00[CHB][hapmap];0.91[ASN][1000 genomes]
rs2757490	0.88[CHB][hapmap];0.91[ASN][1000 genomes]
rs2757491	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[ASN][1000 genomes]
rs2757492	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2757497	0.91[ASN][1000 genomes]
rs2757498	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2757499	0.91[ASN][1000 genomes]
rs2757500	1.00[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[MEX][hapmap];0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs2757501	0.88[ASN][1000 genomes]
rs2757502	1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.82[MEX][hapmap];0.91[ASN][1000 genomes]
rs2757505	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2757506	1.00[CEU][hapmap];0.85[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs61807830	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs61807832	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs6424867	0.91[ASN][1000 genomes]
rs6677550	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6702094	0.89[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.83[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs73044902	0.91[ASN][1000 genomes]
rs74124018	0.91[ASN][1000 genomes]
rs9425269	1.00[CEU][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9425271	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9425284	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9425285	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9425544	0.88[AMR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1000079	chr1:172146935-172230545	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv465650	chr1:172175115-172247127	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv548192	chr1:172175115-172247127	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172208800-172227600	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr1:172209800-172230800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr1:172216400-172229200	Weak transcription	Brain Substantia Nigra	brain
4	chr1:172218600-172224200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
5	chr1:172220600-172224000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr1:172221200-172225000	Enhancers	NHDF-Ad	bronchial
7	chr1:172221200-172225400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr1:172222200-172223800	Enhancers	A549	lung
9	chr1:172223000-172225000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr1:172223000-172225200	Enhancers	Osteobl	bone
11	chr1:172223000-172225600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr1:172223200-172224400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr1:172223200-172224400	Enhancers	Muscle Satellite Cultured Cells	--
14	chr1:172223200-172224400	Enhancers	HUVEC	blood vessel
15	chr1:172223200-172224400	Enhancers	NH-A	brain
16	chr1:172223200-172224600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr1:172223200-172225400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr1:172223400-172230600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
19	chr1:172223600-172225000	Enhancers	HSMMtube	muscle
20	chr1:172223600-172225200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr1:172223600-172225200	Enhancers	NHEK	skin
22	chr1:172223600-172225400	Enhancers	Hela-S3	cervix
23	chr1:172223600-172225400	Enhancers	HMEC	breast
24	chr1:172223600-172225400	Enhancers	HSMM	muscle

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