Variant report

Variant	rs13041016
Chromosome Location	chr20:31685405-31685406
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	chr20:31682659..31685575-chr20:31799359..31800595,12	MCF-7	breast:

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11696307	1.00[JPT][hapmap]
rs11696310	1.00[JPT][hapmap]
rs11696835	0.82[ASN][1000 genomes]
rs11697605	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11699009	1.00[JPT][hapmap]
rs11699448	1.00[JPT][hapmap]
rs11700200	1.00[ASW][hapmap];0.81[CEU][hapmap];0.91[CHB][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.88[MEX][hapmap];0.83[MKK][hapmap];0.86[ASN][1000 genomes]
rs13036385	0.89[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13036592	0.85[AFR][1000 genomes];0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13039811	0.83[ASW][hapmap];0.86[CEU][hapmap];0.91[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.81[LWK][hapmap];0.86[MEX][hapmap];0.90[YRI][hapmap];0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs13044139	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13044428	1.00[JPT][hapmap];0.80[MEX][hapmap]
rs13044703	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1547004	0.90[CEU][hapmap];0.91[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1972201	0.84[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2024934	1.00[JPT][hapmap];0.88[MEX][hapmap]
rs2057261	1.00[JPT][hapmap]
rs2057262	1.00[JPT][hapmap]
rs2070323	0.92[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2070325	0.93[JPT][hapmap]
rs2070326	1.00[ASW][hapmap];0.90[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.91[MEX][hapmap];0.92[MKK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap]
rs2070328	1.00[JPT][hapmap];0.87[MEX][hapmap]
rs2073325	1.00[JPT][hapmap]
rs221982	0.81[CHB][hapmap]
rs2424936	0.82[CHB][hapmap]
rs2424940	0.92[JPT][hapmap]
rs2424942	1.00[JPT][hapmap]
rs2424945	1.00[JPT][hapmap]
rs2424946	1.00[JPT][hapmap]
rs2424947	1.00[JPT][hapmap]
rs2424949	0.82[ASN][1000 genomes]
rs2424953	1.00[JPT][hapmap]
rs2424955	1.00[JPT][hapmap]
rs28461256	0.86[ASN][1000 genomes]
rs2889732	0.93[JPT][hapmap]
rs3926669	0.88[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs4339026	0.90[CEU][hapmap];0.91[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6057717	0.84[JPT][hapmap]
rs6059069	0.93[JPT][hapmap]
rs6059076	1.00[JPT][hapmap]
rs6059079	1.00[JPT][hapmap]
rs6088091	0.93[JPT][hapmap]
rs6141876	0.93[JPT][hapmap]
rs6141877	0.93[JPT][hapmap]
rs7265752	0.82[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.84[MEX][hapmap]
rs7267265	0.80[AMR][1000 genomes]
rs761933	0.95[CEU][hapmap];0.90[CHB][hapmap];0.84[JPT][hapmap];0.81[YRI][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs761938	1.00[ASW][hapmap];0.86[CEU][hapmap];0.91[CHB][hapmap];0.92[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.91[MEX][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[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	nsv1056411	chr20:31057037-31942835	Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	esv2758519	chr20:31495807-31748166	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	esv2758792	chr20:31495807-31748166	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 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	chr20:31684000-31685600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr20:31684400-31685600	Bivalent Enhancer	Fetal Muscle Trunk	muscle
3	chr20:31684400-31685600	Enhancers	Right Atrium	heart
4	chr20:31684600-31689200	Weak transcription	Spleen	Spleen
5	chr20:31685400-31685600	Bivalent Enhancer	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

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