Variant report

Variant	rs1863870
Chromosome Location	chr3:141190538-141190539
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	chr3:141189849..141195094-chr3:141204829..141208801,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000155903	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs1077181	0.96[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11707656	0.81[EUR][1000 genomes]
rs11708253	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11709875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11711318	0.81[EUR][1000 genomes]
rs11714208	0.85[CEU][hapmap];0.85[MEX][hapmap]
rs11716776	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11717144	0.92[CEU][hapmap]
rs11717842	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695734	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695735	0.96[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695736	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12695740	0.87[CEU][hapmap];0.85[MEX][hapmap]
rs12695741	0.90[CEU][hapmap]
rs12695743	0.84[CEU][hapmap]
rs13059128	0.88[CEU][hapmap];1.00[GIH][hapmap];0.93[MEX][hapmap];0.93[TSI][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13072100	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13078872	0.96[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13083593	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13084444	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.85[MEX][hapmap];0.96[TSI][hapmap];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13088429	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13095168	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs13098300	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13099945	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs2312194	0.83[EUR][1000 genomes]
rs2312266	1.00[ASN][1000 genomes]
rs34317570	0.83[EUR][1000 genomes]
rs34342794	0.83[EUR][1000 genomes]
rs3806647	0.81[EUR][1000 genomes]
rs71619392	0.81[EUR][1000 genomes]
rs720663	0.92[CEU][hapmap];0.85[MEX][hapmap];0.83[EUR][1000 genomes]
rs7636914	1.00[GIH][hapmap];0.85[MEX][hapmap];0.90[TSI][hapmap];0.81[AMR][1000 genomes]
rs7651511	0.83[EUR][1000 genomes]
rs9289629	0.96[CEU][hapmap];1.00[MEX][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9289634	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9808953	0.92[CEU][hapmap];0.81[EUR][1000 genomes]
rs9822575	0.92[CEU][hapmap];0.85[MEX][hapmap]
rs9823528	0.83[EUR][1000 genomes]
rs9830055	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs9833121	0.92[CEU][hapmap];0.85[MEX][hapmap]
rs9836050	0.92[CEU][hapmap];0.82[EUR][1000 genomes]
rs9836818	0.83[EUR][1000 genomes]
rs9837202	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9838230	0.82[EUR][1000 genomes]
rs9838419	0.83[EUR][1000 genomes]
rs9840697	0.83[EUR][1000 genomes]
rs9843866	0.83[EUR][1000 genomes]
rs9849180	0.96[CEU][hapmap];1.00[CHB][hapmap];0.96[GIH][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9850416	0.92[CEU][hapmap];0.85[MEX][hapmap];0.81[EUR][1000 genomes]
rs9865971	0.96[CEU][hapmap];0.85[MEX][hapmap];0.83[EUR][1000 genomes]
rs9868956	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs9870749	0.92[CEU][hapmap];0.85[MEX][hapmap]

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs1863870	ZBTB38	cis	cerebellum	SCAN
rs1863870	RASA2	cis	parietal	SCAN
rs1863870	ATP1B3	cis	cerebellum	SCAN
rs1863870	ATR	cis	parietal	SCAN
rs1863870	RASA2	cis	cerebellum	SCAN
rs1863870	GK5	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:141184600-141201000	Weak transcription	NHLF	lung
2	chr3:141188200-141190800	Enhancers	NHDF-Ad	bronchial
3	chr3:141189400-141190800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
4	chr3:141189600-141190600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr3:141189600-141190600	Enhancers	Muscle Satellite Cultured Cells	--
6	chr3:141189600-141190800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:141189800-141190600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:141189800-141194400	Weak transcription	Spleen	Spleen
9	chr3:141190000-141190600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr3:141190200-141190600	Enhancers	Primary hematopoietic stem cells	blood
11	chr3:141190200-141190600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
12	chr3:141190200-141190800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr3:141190400-141195800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:141190400-141195800	Weak transcription	Osteobl	bone

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