Variant report

Variant	rs1941190
Chromosome Location	chr18:28961414-28961415
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	chr18:28949758..28952384-chr18:28959857..28961586,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10163755	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1020838	0.94[EUR][1000 genomes]
rs10775448	0.85[CEU][hapmap];0.97[GIH][hapmap];0.89[TSI][hapmap];0.95[EUR][1000 genomes]
rs11662033	0.82[YRI][hapmap]
rs11876192	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12607068	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1350729	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1350730	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1460594	0.85[CEU][hapmap];0.97[GIH][hapmap];0.89[TSI][hapmap];0.95[EUR][1000 genomes]
rs1460596	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1460597	1.00[CEU][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16959856	1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs16959863	1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1813419	1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[TSI][hapmap];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1841393	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2035039	0.83[LWK][hapmap]
rs2125987	0.86[ASW][hapmap];0.95[CEU][hapmap];0.87[GIH][hapmap];0.86[MEX][hapmap];0.88[TSI][hapmap];0.94[EUR][1000 genomes]
rs3842955	0.85[CEU][hapmap];0.97[GIH][hapmap];0.89[TSI][hapmap];0.95[EUR][1000 genomes]
rs3859362	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs3899889	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4799569	1.00[CEU][hapmap];0.97[GIH][hapmap];0.86[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62095179	0.95[EUR][1000 genomes]
rs6506919	0.87[LWK][hapmap]
rs6506920	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7233718	0.90[CEU][hapmap];0.97[EUR][1000 genomes]
rs8084577	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8086756	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8092320	1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8099619	1.00[CEU][hapmap];0.97[GIH][hapmap];1.00[TSI][hapmap]
rs922184	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs922185	0.83[LWK][hapmap]
rs9304093	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9304095	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs984526	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9951411	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];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9956865	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1066692	chr18:28856066-29190505	Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv543674	chr18:28856066-29190505	Weak transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv916545	chr18:28898800-29166364	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
4	nsv909517	chr18:28956904-29018114	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:28960400-28961800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr18:28960400-28962000	Enhancers	NHEK	skin
3	chr18:28960600-28973400	Weak transcription	Esophagus	oesophagus
4	chr18:28960800-28961600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr18:28961000-28961600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

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