Variant report

Variant	rs2655843
Chromosome Location	chr12:60771811-60771812
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs1021887	0.96[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10784046	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10877413	0.80[EUR][1000 genomes]
rs10877414	0.81[EUR][1000 genomes]
rs10877422	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10877425	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11173391	0.80[EUR][1000 genomes]
rs11173392	0.80[EUR][1000 genomes]
rs11173393	0.80[EUR][1000 genomes]
rs11173395	0.81[EUR][1000 genomes]
rs11173397	0.81[EUR][1000 genomes]
rs11173398	0.81[EUR][1000 genomes]
rs11173405	0.81[EUR][1000 genomes]
rs11173414	0.89[EUR][1000 genomes]
rs11173416	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs11173418	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11173437	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11173438	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11173439	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1119988	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs11536139	0.88[EUR][1000 genomes]
rs11561446	0.80[EUR][1000 genomes]
rs11561447	0.80[EUR][1000 genomes]
rs11836206	0.80[EUR][1000 genomes]
rs12228227	0.86[EUR][1000 genomes]
rs12228889	0.96[CEU][hapmap];0.83[JPT][hapmap]
rs12231371	0.96[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap];0.89[EUR][1000 genomes]
rs12580142	0.89[EUR][1000 genomes]
rs12580151	0.89[EUR][1000 genomes]
rs1319633	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1394328	0.93[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes]
rs1394330	0.96[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes]
rs1504459	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1504460	0.89[EUR][1000 genomes]
rs1504462	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1504463	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1504464	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1532810	0.87[EUR][1000 genomes]
rs1532811	0.96[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes]
rs1566846	0.83[ASN][1000 genomes]
rs1566847	0.96[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1580916	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1604865	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1604866	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1604867	0.96[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes]
rs1604868	0.96[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes]
rs1604869	0.96[CEU][hapmap];0.85[CHB][hapmap];0.86[JPT][hapmap];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17606011	0.89[EUR][1000 genomes]
rs17606158	0.83[EUR][1000 genomes]
rs17606266	0.89[EUR][1000 genomes]
rs17606387	0.88[EUR][1000 genomes]
rs17606458	0.86[EUR][1000 genomes]
rs17669416	0.89[EUR][1000 genomes]
rs1827638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1857730	0.92[CHB][hapmap];0.82[ASN][1000 genomes]
rs1875860	0.84[EUR][1000 genomes]
rs2102257	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2102258	0.83[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.83[EUR][1000 genomes]
rs2221407	0.81[EUR][1000 genomes]
rs2262939	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2363587	0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2363600	0.80[EUR][1000 genomes]
rs2455998	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2655842	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2655846	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2655848	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2655856	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2655871	0.99[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs2655886	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2655893	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2655899	0.83[ASN][1000 genomes]
rs2731465	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs2731487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2731488	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2731491	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2731492	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3920119	0.80[EUR][1000 genomes]
rs4353306	0.91[EUR][1000 genomes]
rs4583008	0.84[EUR][1000 genomes]
rs4616072	0.91[EUR][1000 genomes]
rs4758863	0.96[CEU][hapmap];0.83[JPT][hapmap];0.89[EUR][1000 genomes]
rs55810124	0.87[EUR][1000 genomes]
rs56088032	0.84[EUR][1000 genomes]
rs56173629	0.91[EUR][1000 genomes]
rs56240683	0.80[EUR][1000 genomes]
rs60691341	0.81[EUR][1000 genomes]
rs60798845	0.89[EUR][1000 genomes]
rs6581318	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7306226	0.80[EUR][1000 genomes]
rs7307028	0.87[EUR][1000 genomes]
rs7952971	0.81[EUR][1000 genomes]
rs7960292	0.80[EUR][1000 genomes]
rs7960303	0.80[EUR][1000 genomes]
rs7960487	0.80[EUR][1000 genomes]
rs7961791	0.84[EUR][1000 genomes]
rs7963214	0.83[ASN][1000 genomes]
rs7971143	0.83[ASN][1000 genomes]
rs7971161	0.84[EUR][1000 genomes]
rs7972668	0.89[EUR][1000 genomes]
rs7975549	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs924836	0.81[EUR][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	nsv899137	chr12:60568891-60797083	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	nsv1054287	chr12:60601870-60861866	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv832431	chr12:60626292-60809233	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1047466	chr12:60702221-61521156	Active TSS Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:60771400-60772400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr12:60771600-60772400	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell

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