Variant report

Variant	rs11632441
Chromosome Location	chr15:62372238-62372239
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 113 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs10047986	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1030859	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1030860	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1030861	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10468026	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10468027	0.81[CEU][hapmap];0.86[EUR][1000 genomes]
rs10519153	0.82[CEU][hapmap];0.83[EUR][1000 genomes]
rs10851704	0.82[GIH][hapmap]
rs10851707	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11071641	0.80[YRI][hapmap]
rs11071647	0.82[YRI][hapmap]
rs11071650	0.86[EUR][1000 genomes]
rs11629528	0.82[CEU][hapmap]
rs11629596	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs11630347	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11632842	0.87[GIH][hapmap]
rs11633500	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11635977	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11638793	0.89[GIH][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap]
rs11639147	0.86[EUR][1000 genomes]
rs11639482	0.91[JPT][hapmap]
rs12438690	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12438803	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12439356	0.85[CEU][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs12442212	0.85[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12442448	0.91[GIH][hapmap];0.91[MEX][hapmap];0.84[TSI][hapmap]
rs12442589	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12442675	0.82[CEU][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap];0.84[TSI][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12592402	0.81[CEU][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs12592464	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12593844	0.83[YRI][hapmap]
rs12594658	0.82[CEU][hapmap];0.91[JPT][hapmap]
rs12898209	0.87[GIH][hapmap];0.81[TSI][hapmap];0.86[EUR][1000 genomes]
rs12900703	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12901575	0.83[YRI][hapmap]
rs12913951	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1344601	0.81[CEU][hapmap]
rs1370177	0.89[GIH][hapmap];0.81[TSI][hapmap];0.82[YRI][hapmap]
rs1436958	0.95[CHD][hapmap];0.91[JPT][hapmap];0.84[MEX][hapmap];0.81[ASN][1000 genomes]
rs1436959	0.81[EUR][1000 genomes]
rs1436961	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1436963	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1436964	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1436965	0.82[YRI][hapmap]
rs1534542	0.92[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.83[YRI][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1561197	0.84[GIH][hapmap]
rs17205407	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17205463	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs17271235	0.83[YRI][hapmap]
rs17271403	0.84[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs17271431	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs17271438	0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs17304010	0.83[YRI][hapmap]
rs1836996	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2113932	0.80[YRI][hapmap]
rs2113933	0.80[YRI][hapmap]
rs2162062	0.91[JPT][hapmap]
rs2162064	0.82[YRI][hapmap]
rs2414754	0.85[CEU][hapmap]
rs2414759	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs28542204	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2899677	0.81[ASN][1000 genomes]
rs34096515	0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs34138933	0.81[ASN][1000 genomes]
rs3784445	0.89[CEU][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap];0.85[EUR][1000 genomes]
rs3784633	0.83[CEU][hapmap]
rs4143841	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4143842	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4143843	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4372632	0.82[CEU][hapmap];0.86[EUR][1000 genomes]
rs4541010	0.80[YRI][hapmap]
rs4564516	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4620905	0.80[YRI][hapmap]
rs4638519	0.82[YRI][hapmap]
rs4775455	0.82[CEU][hapmap];0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4775457	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4775458	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6494300	0.84[YRI][hapmap]
rs7161883	0.82[CEU][hapmap];0.83[YRI][hapmap];0.86[EUR][1000 genomes]
rs7162536	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7163326	0.87[GIH][hapmap]
rs7164933	0.80[GIH][hapmap]
rs7168164	0.89[GIH][hapmap];0.82[YRI][hapmap]
rs7177276	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7177711	0.85[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7178424	0.85[CEU][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7178540	0.85[CEU][hapmap];0.86[CHB][hapmap];0.81[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7178945	0.88[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.84[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7182842	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs731820	0.85[CEU][hapmap];0.90[CHB][hapmap];0.81[CHD][hapmap];0.83[GIH][hapmap];0.95[JPT][hapmap];0.88[MEX][hapmap];0.85[TSI][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs8025877	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs8026008	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs8032433	0.89[CHD][hapmap];0.90[JPT][hapmap];0.84[MEX][hapmap]
rs8038932	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8039651	0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];0.95[JPT][hapmap];0.87[MEX][hapmap];0.84[TSI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs893156	0.85[CEU][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs893157	0.96[CEU][hapmap]
rs893158	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs933807	0.81[GIH][hapmap];0.82[JPT][hapmap];0.88[MEX][hapmap]
rs9635310	0.85[EUR][1000 genomes]
rs9920758	0.81[EUR][1000 genomes]
rs9989353	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9989354	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv457176	chr15:62178695-62519658	Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
2	nsv569643	chr15:62178695-62519658	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
3	nsv471247	chr15:62202481-62519658	Enhancers Weak transcription Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv569646	chr15:62202482-62519658	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
5	nsv1044748	chr15:62276183-62521856	Active TSS Enhancers Bivalent/Poised TSS Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv542405	chr15:62276183-62521856	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv457178	chr15:62340126-62394324	Enhancers Weak transcription Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
8	nsv569652	chr15:62340126-62394324	Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
9	nsv1560	chr15:62354264-62399304	Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
10	nsv948606	chr15:62364932-63088916	Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11632441	VPS13C	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:62367800-62379800	Weak transcription	Pancreas	Pancrea
2	chr15:62372200-62373200	Enhancers	Pancreatic Islets	Pancreatic Islet

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