Variant report

Variant	rs6743356
Chromosome Location	chr2:187152664-187152665
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 191 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:180)

rs_ID	r²[population]
rs10172511	0.84[ASN][1000 genomes]
rs10186776	0.83[JPT][hapmap]
rs10188807	0.87[ASN][1000 genomes]
rs10189971	0.83[ASN][1000 genomes]
rs10193268	0.84[ASN][1000 genomes]
rs10193729	0.87[JPT][hapmap]
rs10194541	0.87[ASN][1000 genomes]
rs10194719	0.84[ASN][1000 genomes]
rs10196208	0.80[ASN][1000 genomes]
rs10201874	0.81[ASN][1000 genomes]
rs10203879	0.84[ASN][1000 genomes]
rs10205506	0.83[ASN][1000 genomes]
rs10205705	0.83[ASN][1000 genomes]
rs10210844	0.95[JPT][hapmap]
rs1026118	0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs10439308	0.87[ASN][1000 genomes]
rs10804003	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10804004	0.95[ASN][1000 genomes]
rs10931239	0.84[ASN][1000 genomes]
rs10931242	0.82[ASN][1000 genomes]
rs11676936	0.83[ASN][1000 genomes]
rs11683595	0.82[ASN][1000 genomes]
rs11693737	0.80[ASN][1000 genomes]
rs11889909	0.83[ASN][1000 genomes]
rs12052331	0.87[ASN][1000 genomes]
rs12053380	0.80[ASN][1000 genomes]
rs12463831	0.87[ASN][1000 genomes]
rs12467212	0.82[ASN][1000 genomes]
rs12467891	0.95[ASN][1000 genomes]
rs12469301	0.97[ASN][1000 genomes]
rs12470370	0.86[ASN][1000 genomes]
rs12473076	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs12473542	0.84[ASN][1000 genomes]
rs12475522	0.80[ASN][1000 genomes]
rs12477683	0.84[ASN][1000 genomes]
rs12478370	0.94[ASN][1000 genomes]
rs12614800	0.87[ASN][1000 genomes]
rs12615503	0.87[ASN][1000 genomes]
rs12615675	0.90[ASN][1000 genomes]
rs12619990	0.82[ASN][1000 genomes]
rs12620626	0.87[ASN][1000 genomes]
rs12623611	0.95[ASN][1000 genomes]
rs12693444	0.83[ASN][1000 genomes]
rs12693447	0.81[ASN][1000 genomes]
rs12693448	0.83[ASN][1000 genomes]
rs12693449	0.82[ASN][1000 genomes]
rs12993773	0.87[CHB][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs12997583	0.95[JPT][hapmap]
rs12998229	0.82[ASN][1000 genomes]
rs12999247	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs13003337	0.82[ASN][1000 genomes]
rs13009502	0.90[ASN][1000 genomes]
rs13015996	0.95[ASN][1000 genomes]
rs13016181	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13016273	0.92[ASN][1000 genomes]
rs13018467	0.95[ASN][1000 genomes]
rs13023992	0.99[ASN][1000 genomes]
rs13024310	0.95[ASN][1000 genomes]
rs13025505	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs13027135	0.84[ASN][1000 genomes]
rs13029473	0.94[ASN][1000 genomes]
rs13029766	0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13029980	0.91[ASN][1000 genomes]
rs13030324	0.82[ASN][1000 genomes]
rs13403118	0.81[ASN][1000 genomes]
rs13409734	0.88[ASN][1000 genomes]
rs13420379	0.87[JPT][hapmap]
rs13421394	0.99[ASN][1000 genomes]
rs13421948	0.88[ASN][1000 genomes]
rs13426333	0.86[ASN][1000 genomes]
rs1349154	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1375321	0.83[ASN][1000 genomes]
rs1375324	0.84[ASN][1000 genomes]
rs1375325	0.84[ASN][1000 genomes]
rs1375327	0.84[ASN][1000 genomes]
rs1375328	0.84[ASN][1000 genomes]
rs1448851	0.83[ASN][1000 genomes]
rs1448852	0.83[ASN][1000 genomes]
rs1448854	0.84[CHD][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1448856	0.95[ASN][1000 genomes]
rs1448858	0.95[ASN][1000 genomes]
rs1448860	0.83[ASN][1000 genomes]
rs1448861	0.84[ASN][1000 genomes]
rs1451874	0.95[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs1562646	0.85[CHD][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs1562647	0.82[ASN][1000 genomes]
rs2044919	0.82[CHD][hapmap];0.90[JPT][hapmap]
rs2084485	0.82[ASN][1000 genomes]
rs2197816	0.83[ASN][1000 genomes]
rs2370661	0.87[JPT][hapmap]
rs2370667	0.85[ASN][1000 genomes]
rs2370691	0.83[ASN][1000 genomes]
rs2370692	0.82[ASN][1000 genomes]
rs28498768	0.88[ASN][1000 genomes]
rs2887819	0.85[ASN][1000 genomes]
rs3107167	0.88[ASN][1000 genomes]
rs3107177	0.85[ASN][1000 genomes]
rs3107406	0.87[ASN][1000 genomes]
rs3107414	0.87[ASN][1000 genomes]
rs3112322	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs34229945	0.84[ASN][1000 genomes]
rs4016824	0.82[ASN][1000 genomes]
rs4130801	0.84[ASN][1000 genomes]
rs4271735	0.92[ASN][1000 genomes]
rs4305232	0.83[ASN][1000 genomes]
rs4341896	0.95[ASN][1000 genomes]
rs4363995	0.88[ASN][1000 genomes]
rs4430906	0.99[ASN][1000 genomes]
rs4522568	0.86[ASN][1000 genomes]
rs4530331	0.87[ASN][1000 genomes]
rs4535008	0.82[ASN][1000 genomes]
rs4569437	0.99[ASN][1000 genomes]
rs4608482	0.90[ASN][1000 genomes]
rs4637073	0.85[ASN][1000 genomes]
rs4666701	0.84[ASN][1000 genomes]
rs4666703	0.82[ASN][1000 genomes]
rs4667079	0.87[ASN][1000 genomes]
rs4667080	0.87[ASN][1000 genomes]
rs4667081	0.82[ASN][1000 genomes]
rs4667086	0.82[ASN][1000 genomes]
rs4667090	0.90[ASN][1000 genomes]
rs4667092	0.82[ASN][1000 genomes]
rs4667095	0.81[ASN][1000 genomes]
rs5008098	0.86[ASN][1000 genomes]
rs56347348	0.96[ASN][1000 genomes]
rs56393956	0.87[ASN][1000 genomes]
rs56681734	0.88[ASN][1000 genomes]
rs56718299	0.87[ASN][1000 genomes]
rs56786415	0.86[ASN][1000 genomes]
rs57289110	0.87[ASN][1000 genomes]
rs58244659	0.87[ASN][1000 genomes]
rs58488407	0.86[ASN][1000 genomes]
rs58579412	0.87[ASN][1000 genomes]
rs58783284	0.88[ASN][1000 genomes]
rs59087873	0.86[ASN][1000 genomes]
rs59224241	0.87[ASN][1000 genomes]
rs59276018	0.88[ASN][1000 genomes]
rs59360834	0.84[ASN][1000 genomes]
rs60859807	0.87[ASN][1000 genomes]
rs61083860	0.87[ASN][1000 genomes]
rs61253791	0.87[ASN][1000 genomes]
rs6434170	0.84[ASN][1000 genomes]
rs6434171	0.83[ASN][1000 genomes]
rs6434179	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs66593320	0.87[ASN][1000 genomes]
rs6704957	0.96[ASN][1000 genomes]
rs6712627	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs6715735	0.99[ASN][1000 genomes]
rs6717081	0.95[JPT][hapmap]
rs6717965	0.84[ASN][1000 genomes]
rs6728734	0.84[ASN][1000 genomes]
rs6740632	0.85[CHD][hapmap];0.95[JPT][hapmap]
rs6741525	0.87[ASN][1000 genomes]
rs6742402	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6742943	0.91[ASN][1000 genomes]
rs6744814	0.88[ASN][1000 genomes]
rs6745187	0.87[ASN][1000 genomes]
rs6745873	0.84[ASN][1000 genomes]
rs6754898	0.87[ASN][1000 genomes]
rs6755955	0.84[ASN][1000 genomes]
rs6760230	0.87[ASN][1000 genomes]
rs67917059	0.86[ASN][1000 genomes]
rs716130	0.84[ASN][1000 genomes]
rs72907565	0.87[ASN][1000 genomes]
rs73035230	0.86[ASN][1000 genomes]
rs73035235	0.87[ASN][1000 genomes]
rs73035261	0.87[ASN][1000 genomes]
rs7558599	0.82[ASN][1000 genomes]
rs7560019	0.88[ASN][1000 genomes]
rs7562659	0.85[CHD][hapmap];0.95[JPT][hapmap]
rs7571191	0.87[ASN][1000 genomes]
rs7571408	0.88[ASN][1000 genomes]
rs7573296	0.85[ASN][1000 genomes]
rs7579391	0.99[ASN][1000 genomes]
rs7580038	0.95[ASN][1000 genomes]
rs7587077	0.84[ASN][1000 genomes]
rs7587079	0.84[ASN][1000 genomes]
rs7602918	0.84[ASN][1000 genomes]
rs7606494	0.83[ASN][1000 genomes]
rs980540	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv875545	chr2:186566024-187280164	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
2	nsv817325	chr2:186625679-187200841	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv868949	chr2:186657142-187327560	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv932296	chr2:186737443-187265790	Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
5	nsv875548	chr2:186798249-187164657	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv1014726	chr2:187036909-187213113	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv536078	chr2:187036909-187213113	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	nsv961742	chr2:187148271-187155825	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv961743	chr2:187148271-187159618	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv1006411	chr2:187150025-187291081	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv536079	chr2:187150025-187291081	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6743356	ITGAV	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:187147800-187167600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr2:187152200-187153200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr2:187152400-187153000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links