Variant report

Variant	rs12663882
Chromosome Location	chr6:36362441-36362442
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:36361166..36363821-chr6:36368323..36371413,3	K562	blood:
2	chr6:36361723..36363438-chr6:36369913..36371565,2	K562	blood:
3	chr6:36360735..36363315-chr6:36364185..36366578,3	K562	blood:

Extended variants
information (count: 88 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs1061632	0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap]
rs10947604	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10947607	0.81[ASN][1000 genomes]
rs10947608	0.81[ASN][1000 genomes]
rs11755264	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs11757842	0.93[ASW][hapmap];0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap];0.84[ASN][1000 genomes]
rs11759996	0.80[ASN][1000 genomes]
rs1191	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs12181938	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12190062	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs12660899	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1358981	0.85[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1535510	0.83[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs16888552	0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap];0.84[ASN][1000 genomes]
rs1983781	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs2007741	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs2057351	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2145751	0.80[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs2146333	0.82[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap]
rs2180929	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2187827	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs2234069	0.93[ASN][1000 genomes]
rs2239807	0.83[CEU][hapmap];0.87[CHB][hapmap];0.95[CHD][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap]
rs2239808	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs2300064	0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap]
rs35323926	0.85[ASN][1000 genomes]
rs3756911	0.91[CHB][hapmap];0.90[JPT][hapmap]
rs3798472	0.81[CEU][hapmap];0.86[JPT][hapmap]
rs3798473	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs3819760	0.83[CEU][hapmap];0.87[CHB][hapmap];0.81[JPT][hapmap]
rs4598	0.93[ASW][hapmap];0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap]
rs4713972	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4713973	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56763433	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58093537	0.81[ASN][1000 genomes]
rs58153398	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59955083	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6457920	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.82[ASN][1000 genomes]
rs6457923	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs6457928	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs6457929	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs67313027	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6899372	0.82[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs6899421	0.81[ASN][1000 genomes]
rs6901513	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6905347	0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap];0.81[ASN][1000 genomes]
rs6905686	0.83[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs6911877	0.93[ASW][hapmap];0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap]
rs6912117	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6912982	0.83[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap]
rs6913613	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs6913714	0.93[ASW][hapmap];0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap]
rs6917489	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6917951	0.82[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs6917981	0.81[ASN][1000 genomes]
rs6920166	0.93[ASW][hapmap];0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.90[JPT][hapmap];0.88[MEX][hapmap];0.83[TSI][hapmap]
rs6923337	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6926522	0.83[CEU][hapmap];0.91[CHB][hapmap];0.95[CHD][hapmap];0.85[GIH][hapmap];0.90[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap];0.81[ASN][1000 genomes]
rs6927896	0.83[CEU][hapmap];0.87[CHB][hapmap];0.82[CHD][hapmap];0.81[JPT][hapmap];0.82[MEX][hapmap];0.83[TSI][hapmap]
rs6928087	0.82[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs6930496	0.81[ASN][1000 genomes]
rs6936942	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap];0.81[ASN][1000 genomes]
rs6941593	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs73408850	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73411055	0.81[ASN][1000 genomes]
rs7742459	0.81[CEU][hapmap];0.85[JPT][hapmap]
rs7745437	0.84[ASN][1000 genomes]
rs7752714	0.81[ASN][1000 genomes]
rs7767377	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7769765	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7771028	0.81[ASN][1000 genomes]
rs7772524	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs933236	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs9462186	0.81[ASN][1000 genomes]
rs9462193	0.80[CEU][hapmap];0.90[JPT][hapmap]
rs9470265	0.86[CHB][hapmap];0.81[CHD][hapmap];0.91[JPT][hapmap];0.82[ASN][1000 genomes]
rs9470267	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9470273	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs9470280	0.83[CEU][hapmap];0.95[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];0.95[JPT][hapmap];0.82[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs9470294	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs9470295	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs9470297	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs9470300	0.83[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs9470302	0.82[CEU][hapmap];0.91[CHB][hapmap];0.90[JPT][hapmap]
rs9654588	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9767243	0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428481	chr6:36219000-36365746	Bivalent/Poised TSS Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
2	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:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12663882	TULP1	cis	cerebellum	SCAN
rs12663882	PNPLA1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:36356200-36365400	Weak transcription	Gastric	stomach

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