Variant report

Variant	rs6093657
Chromosome Location	chr20:41116291-41116292
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1033642	0.81[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap]
rs1033643	0.83[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.93[TSI][hapmap]
rs1569908	0.94[CHB][hapmap];0.87[JPT][hapmap]
rs2064677	0.83[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.82[MEX][hapmap];0.93[TSI][hapmap]
rs2064678	0.83[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.83[MEX][hapmap];0.96[TSI][hapmap]
rs2205939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2207885	0.81[JPT][hapmap]
rs2207886	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.82[ASN][1000 genomes]
rs58811143	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6016816	0.94[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap]
rs6030291	0.81[JPT][hapmap]
rs6065496	0.93[JPT][hapmap]
rs6072758	1.00[CHB][hapmap];1.00[CHD][hapmap];0.94[JPT][hapmap];0.84[TSI][hapmap];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6072759	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6072767	1.00[CEU][hapmap];0.90[GIH][hapmap];0.92[MEX][hapmap];0.96[TSI][hapmap]
rs6072768	1.00[CEU][hapmap]
rs6072771	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs6072773	0.83[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.96[TSI][hapmap];0.82[ASN][1000 genomes]
rs6072775	0.81[CEU][hapmap]
rs6093656	0.85[CHD][hapmap];0.84[TSI][hapmap];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6093669	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6093671	1.00[YRI][hapmap]
rs6093672	0.94[CHB][hapmap];0.87[JPT][hapmap]
rs6093673	0.83[CEU][hapmap];0.94[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs6102853	0.83[CEU][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6102854	0.87[YRI][hapmap]
rs6102883	1.00[YRI][hapmap]
rs6102887	1.00[YRI][hapmap]
rs6102888	0.81[JPT][hapmap];0.91[MEX][hapmap]
rs6102891	1.00[YRI][hapmap]
rs6102894	0.82[ASN][1000 genomes]
rs6102895	0.83[CEU][hapmap];0.88[TSI][hapmap]
rs6102899	0.83[CEU][hapmap];0.82[CHB][hapmap]
rs6102904	0.83[CEU][hapmap]
rs61527253	0.85[ASN][1000 genomes]
rs66464743	0.85[EUR][1000 genomes]
rs66955877	0.93[ASN][1000 genomes]
rs8121624	0.88[YRI][hapmap]
rs9631147	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2751913	chr20:40422982-41269321	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv833987	chr20:41007663-41184914	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
3	nsv1059852	chr20:41087948-41217672	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv544276	chr20:41087948-41217672	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1055546	chr20:41102999-41260749	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv1807209	chr20:41107678-41154898	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6093657	SDC4	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:41113600-41125600	Weak transcription	Pancreas	Pancrea
2	chr20:41115400-41119800	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr20:41116200-41119800	Weak transcription	Primary monocytes fromperipheralblood	blood

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