Variant report

Variant	rs1875860
Chromosome Location	chr12:60729556-60729557
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr12:60722184..60725266-chr12:60727493..60729736,3	K562	blood:
2	chr12:60728334..60729912-chr12:60733867..60736379,2	MCF-7	breast:
3	chr12:60721131..60724243-chr12:60726194..60729736,3	K562	blood:

Variant related genes	Relation type
ENSG00000252607	Chromatin interaction

Extended variants
information (count: 122 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:117)

rs_ID	r²[population]
rs1021887	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10784046	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10877412	0.82[EUR][1000 genomes]
rs10877413	0.84[EUR][1000 genomes]
rs10877414	0.85[EUR][1000 genomes]
rs10877422	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11173389	0.82[EUR][1000 genomes]
rs11173391	0.84[EUR][1000 genomes]
rs11173392	0.84[EUR][1000 genomes]
rs11173393	0.84[EUR][1000 genomes]
rs11173395	0.85[EUR][1000 genomes]
rs11173396	0.85[EUR][1000 genomes]
rs11173397	0.85[EUR][1000 genomes]
rs11173398	0.85[EUR][1000 genomes]
rs11173405	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11173407	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11173414	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11173416	0.81[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11173418	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11173437	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11173438	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11173439	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1125188	0.85[EUR][1000 genomes]
rs11536139	0.84[EUR][1000 genomes]
rs11561446	0.84[EUR][1000 genomes]
rs11561447	0.84[EUR][1000 genomes]
rs11836206	0.84[EUR][1000 genomes]
rs12228227	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12228889	0.95[JPT][hapmap];0.96[YRI][hapmap]
rs12231371	0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12231943	0.83[EUR][1000 genomes]
rs12580142	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12580151	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1319633	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1394328	0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1394330	0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1504459	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1504460	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1504462	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1504463	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1504464	0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1532810	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1532811	0.95[JPT][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1566847	0.88[EUR][1000 genomes]
rs1580916	0.84[EUR][1000 genomes]
rs1604865	0.84[EUR][1000 genomes]
rs1604866	0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1604867	0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1604868	0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1604869	1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17606011	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17606158	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs17606266	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17606387	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17606458	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17669416	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1827638	0.84[EUR][1000 genomes]
rs1995514	0.80[AMR][1000 genomes]
rs1995515	0.82[EUR][1000 genomes]
rs2102257	0.84[EUR][1000 genomes]
rs2102258	0.85[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2202365	0.82[EUR][1000 genomes]
rs2221407	0.85[EUR][1000 genomes]
rs2262939	0.84[EUR][1000 genomes]
rs2363587	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2363600	0.84[EUR][1000 genomes]
rs2455998	0.81[EUR][1000 genomes]
rs2655842	0.84[EUR][1000 genomes]
rs2655843	0.84[EUR][1000 genomes]
rs2655846	0.83[EUR][1000 genomes]
rs2655848	0.84[EUR][1000 genomes]
rs2655856	0.83[EUR][1000 genomes]
rs2655893	0.84[EUR][1000 genomes]
rs2731487	0.84[EUR][1000 genomes]
rs2731488	0.84[EUR][1000 genomes]
rs2731491	0.84[EUR][1000 genomes]
rs2731492	0.84[EUR][1000 genomes]
rs3901470	0.85[EUR][1000 genomes]
rs3920119	0.84[EUR][1000 genomes]
rs4353306	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4583008	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4616072	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4638340	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs4758863	0.95[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs55810124	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs56088032	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs56173629	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56240683	0.84[EUR][1000 genomes]
rs60691341	0.85[EUR][1000 genomes]
rs60798845	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61923155	0.82[EUR][1000 genomes]
rs61923156	0.82[EUR][1000 genomes]
rs61923157	0.82[EUR][1000 genomes]
rs61925560	0.85[EUR][1000 genomes]
rs6581310	0.83[EUR][1000 genomes]
rs6581318	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7136835	0.86[EUR][1000 genomes]
rs7136994	0.83[EUR][1000 genomes]
rs7295183	0.83[EUR][1000 genomes]
rs7305978	0.89[EUR][1000 genomes]
rs7306226	0.84[EUR][1000 genomes]
rs7307028	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7952971	0.85[EUR][1000 genomes]
rs7953857	0.82[EUR][1000 genomes]
rs7957295	0.80[EUR][1000 genomes]
rs7960292	0.84[EUR][1000 genomes]
rs7960303	0.84[EUR][1000 genomes]
rs7960487	0.84[EUR][1000 genomes]
rs7961791	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7961816	0.82[EUR][1000 genomes]
rs7971161	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7972668	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7973156	0.82[EUR][1000 genomes]
rs7975549	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs905722	0.85[EUR][1000 genomes]
rs924835	0.85[EUR][1000 genomes]
rs924836	0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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
5	nsv983465	chr12:60721408-60752940	Enhancers Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:60726600-60730200	Enhancers	HUVEC	blood vessel
2	chr12:60729200-60729800	Enhancers	NH-A	brain
3	chr12:60729200-60730000	Enhancers	Hela-S3	cervix
4	chr12:60729200-60730000	Enhancers	NHEK	skin
5	chr12:60729400-60729800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
6	chr12:60729400-60729800	Enhancers	Placenta Amnion	Placenta Amnion
7	chr12:60729400-60730000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr12:60729400-60730000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr12:60729400-60730000	Flanking Active TSS	A549	lung
10	chr12:60729400-60730000	Enhancers	HMEC	breast

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