Variant report

Variant	rs1535510
Chromosome Location	chr6:36400461-36400462
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36391101..36392924-chr6:36399444..36401208,2	MCF-7	breast:
2	chr6:36388047..36404187-chr6:36407090..36418492,47	K562	blood:
3	chr6:36393812..36400727-chr6:36401208..36405433,7	K562	blood:
4	chr6:36395657..36401114-chr6:36407932..36413764,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000179165	Chromatin interaction
ENSG00000112078	Chromatin interaction

Extended variants
information (count: 145 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:144)

rs_ID	r²[population]
rs1003249	0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10484615	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1061632	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap]
rs10947604	0.84[ASN][1000 genomes]
rs10947607	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10947608	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10947611	0.83[EUR][1000 genomes]
rs10947615	0.82[CEU][hapmap]
rs1137628	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11755264	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11756413	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11757842	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11759996	0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1191	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.80[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12110954	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12181938	0.98[ASN][1000 genomes]
rs12190062	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12209196	0.83[EUR][1000 genomes]
rs12211528	0.83[EUR][1000 genomes]
rs12660899	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12663882	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1358981	0.83[CEU][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs16888552	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16888690	0.87[EUR][1000 genomes]
rs1983781	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1985423	0.87[EUR][1000 genomes]
rs2007741	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2057351	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2071810	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2145751	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2146333	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2180929	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2187827	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2234069	0.85[ASN][1000 genomes]
rs2239807	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes]
rs2239808	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2267925	0.84[EUR][1000 genomes]
rs2267926	0.83[EUR][1000 genomes]
rs2267927	0.85[EUR][1000 genomes]
rs2267928	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2267929	0.87[EUR][1000 genomes]
rs2267931	0.80[AMR][1000 genomes]
rs2267932	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2300064	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2894407	0.83[EUR][1000 genomes]
rs3752479	0.85[EUR][1000 genomes]
rs3756911	0.94[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3756912	0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3778019	0.83[EUR][1000 genomes]
rs3798470	0.84[EUR][1000 genomes]
rs3798472	1.00[CEU][hapmap];0.91[JPT][hapmap];0.84[EUR][1000 genomes]
rs3798473	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3798474	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs3819760	1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes]
rs3822970	0.83[EUR][1000 genomes]
rs4598	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4713972	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4713973	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs55829962	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs56086408	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56763433	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs57423505	0.84[EUR][1000 genomes]
rs57646047	0.83[EUR][1000 genomes]
rs58093537	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs58153398	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59104483	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs59955083	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs60043926	0.82[EUR][1000 genomes]
rs6457920	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6457921	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6457923	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6457928	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs6457929	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs67018593	0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs67313027	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs67640018	0.82[EUR][1000 genomes]
rs6899372	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs6899421	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6899631	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6901513	0.84[ASN][1000 genomes]
rs6902076	0.83[EUR][1000 genomes]
rs6902473	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6905347	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6905686	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6911877	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6912117	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6912982	1.00[CEU][hapmap];0.87[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs6913530	0.81[CEU][hapmap]
rs6913613	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs6913693	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6913714	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs6917489	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6917951	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs6917981	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6920166	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs6923337	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6926522	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6926796	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6927896	1.00[CEU][hapmap];0.87[CHB][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes]
rs6928087	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6930496	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6936942	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6939445	0.83[EUR][1000 genomes]
rs6941593	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73408850	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73411055	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73413258	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73413267	0.88[EUR][1000 genomes]
rs7344	0.80[CEU][hapmap]
rs7738604	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7742459	1.00[CEU][hapmap];0.81[JPT][hapmap];0.84[EUR][1000 genomes]
rs7743396	0.81[CEU][hapmap]
rs7745411	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7749358	0.84[EUR][1000 genomes]
rs7752714	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7754363	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7763089	0.83[EUR][1000 genomes]
rs7767377	0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs7769765	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7771028	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7772524	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7772800	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs933236	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9462185	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9462186	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9462190	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9462193	1.00[CEU][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes]
rs9470265	0.86[CHB][hapmap];0.86[JPT][hapmap]
rs9470267	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9470273	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9470280	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9470289	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9470291	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9470293	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9470294	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9470295	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470296	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470297	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470300	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9470302	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9470304	0.84[EUR][1000 genomes]
rs9654588	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9767243	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9767778	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885806	chr6:36349890-36621178	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	103 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1535510	KCTD20	cis	Skin Sun Exposed Lower leg	GTEx

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36392000-36404200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
2	chr6:36398400-36400600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:36398800-36400800	Enhancers	Osteobl	bone
4	chr6:36399000-36400600	Enhancers	Placenta Amnion	Placenta Amnion
5	chr6:36399000-36410200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr6:36399200-36400800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr6:36399200-36400800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr6:36399400-36400600	Enhancers	HSMM	muscle
9	chr6:36399600-36400600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr6:36399600-36400600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
11	chr6:36399600-36400600	Enhancers	NHEK	skin
12	chr6:36399800-36400600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr6:36399800-36400600	Flanking Active TSS	GM12878-XiMat	blood
14	chr6:36399800-36400800	Enhancers	HSMMtube	muscle
15	chr6:36399800-36401000	Enhancers	HMEC	breast
16	chr6:36400000-36400600	Enhancers	ES-I3 Cell Line	embryonic stem cell
17	chr6:36400000-36400600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
18	chr6:36400000-36400600	Flanking Active TSS	Hela-S3	cervix
19	chr6:36400000-36400800	Enhancers	A549	lung
20	chr6:36400200-36400600	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr6:36400200-36400600	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr6:36400200-36400600	Flanking Active TSS	Muscle Satellite Cultured Cells	--
23	chr6:36400200-36400800	Enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr6:36400200-36400800	Enhancers	NH-A	brain
25	chr6:36400400-36408400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
26	chr6:36400400-36409200	Weak transcription	Placenta	Placenta

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