Variant report

Variant	rs4902193
Chromosome Location	chr14:63334887-63334888
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 83 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10047851	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs10047852	0.92[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap]
rs10047856	0.92[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap]
rs10047884	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs10047938	0.92[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap]
rs10130817	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs10134277	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10134985	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs10135128	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10135421	0.92[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs10135862	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap]
rs10136167	0.91[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap]
rs10138498	0.92[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs10139105	0.90[CEU][hapmap];0.89[CHB][hapmap]
rs10139268	0.91[CEU][hapmap];0.89[CHB][hapmap];0.85[JPT][hapmap]
rs10139468	0.92[CEU][hapmap];0.89[CHB][hapmap];0.86[JPT][hapmap]
rs10140008	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs10143260	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10143966	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10146526	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs10146673	0.92[CEU][hapmap]
rs10146879	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10147931	0.91[CEU][hapmap];0.89[CHB][hapmap]
rs10148076	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs10151264	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10483757	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs10483758	0.90[CHB][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap]
rs10483759	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10483760	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs10483762	1.00[CHB][hapmap];0.91[CHD][hapmap];0.80[ASN][1000 genomes]
rs10873163	0.91[CEU][hapmap];0.90[CHB][hapmap];0.83[JPT][hapmap]
rs10873164	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10873165	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12100661	0.92[CEU][hapmap];0.84[CHB][hapmap];0.82[JPT][hapmap]
rs12147279	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs12586807	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap]
rs12587225	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12587258	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12588293	1.00[CHB][hapmap]
rs12588552	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap]
rs12588586	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs12589408	1.00[CEU][hapmap];0.89[MEX][hapmap];0.85[TSI][hapmap];0.83[EUR][1000 genomes]
rs12881527	1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[ASN][1000 genomes]
rs1543437	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap]
rs17100446	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs17100497	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs17223580	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17223818	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs17223839	1.00[CEU][hapmap];0.94[MEX][hapmap];0.92[TSI][hapmap];0.85[EUR][1000 genomes]
rs17223846	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs17823609	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.89[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17823627	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs17823807	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs1950568	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1956018	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs1956026	1.00[CEU][hapmap]
rs2144775	0.96[ASN][1000 genomes]
rs2355741	0.90[CHB][hapmap];0.94[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap]
rs2860089	0.92[CEU][hapmap];0.90[CHB][hapmap];0.82[JPT][hapmap]
rs41419249	0.92[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.89[TSI][hapmap]
rs4146434	1.00[CEU][hapmap]
rs4146435	1.00[CEU][hapmap]
rs4270090	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap]
rs4899096	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs4899100	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.81[JPT][hapmap];0.89[MEX][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4902191	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4902192	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];1.00[TSI][hapmap]
rs57087381	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs59454582	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6573462	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs7146868	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap]
rs8004918	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap]
rs8005915	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap]
rs8007782	1.00[CEU][hapmap]
rs8013931	0.85[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap]
rs8015097	1.00[CHB][hapmap];0.86[JPT][hapmap];0.94[ASN][1000 genomes]
rs8019236	0.89[CHB][hapmap]
rs9323421	0.91[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap]
rs9323422	0.92[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap]
rs9888566	0.92[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.92[TSI][hapmap]
rs9888605	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

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	nsv902015	chr14:63261862-63356253	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv1042953	chr14:63314591-63384260	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4902193	SIX1	cis	cerebellum	SCAN
rs4902193	C14orf39	cis	parietal	SCAN
rs4902193	SYT16	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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