Variant report

Variant	rs2352195
Chromosome Location	chr13:92584162-92584163
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1411514	1.00[CEU][hapmap];0.95[CHB][hapmap];0.89[YRI][hapmap]
rs1411516	0.90[CHB][hapmap]
rs1411517	0.90[CHB][hapmap];0.97[CHD][hapmap]
rs1571596	0.81[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap]
rs1819421	0.85[CHB][hapmap];0.87[CHD][hapmap];0.80[JPT][hapmap];0.83[MEX][hapmap]
rs1854734	0.92[CEU][hapmap];0.90[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs1854735	0.85[ASN][1000 genomes]
rs1926489	0.81[CHD][hapmap]
rs2065194	0.90[CHB][hapmap]
rs2352192	0.88[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.95[MEX][hapmap];0.95[TSI][hapmap]
rs2352193	0.96[ASN][1000 genomes]
rs2352197	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2352199	0.81[CEU][hapmap];0.95[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap]
rs4773655	0.88[ASW][hapmap];0.96[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.89[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4773656	0.81[CEU][hapmap];0.95[CHB][hapmap]
rs4773657	0.89[CHB][hapmap];0.96[CHD][hapmap]
rs6492567	0.90[CHB][hapmap]
rs7318425	0.85[CHB][hapmap];0.80[JPT][hapmap]
rs7319605	0.95[CHB][hapmap]
rs7321674	0.81[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];1.00[MEX][hapmap];0.85[ASN][1000 genomes]
rs7325116	0.81[CEU][hapmap];0.95[CHB][hapmap]
rs7332162	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7982480	0.90[CHB][hapmap]
rs7983259	0.84[CHB][hapmap]
rs7986596	0.90[CHB][hapmap];0.97[CHD][hapmap]
rs7989697	0.90[CHB][hapmap];0.97[CHD][hapmap]
rs871490	0.80[GIH][hapmap];0.81[TSI][hapmap]
rs9301758	0.81[CHD][hapmap];0.80[JPT][hapmap]
rs9301763	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs9301765	0.90[CHB][hapmap]
rs9515990	0.88[CHD][hapmap];0.83[GIH][hapmap];0.85[JPT][hapmap]
rs9515994	0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9515998	0.90[CHB][hapmap]
rs9523451	0.92[CEU][hapmap];0.85[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.89[TSI][hapmap]
rs9523453	0.91[CEU][hapmap];0.95[CHB][hapmap];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9523454	0.94[CHB][hapmap];0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9523455	0.81[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.81[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs9523458	0.90[CHB][hapmap];0.93[CHD][hapmap]
rs9523466	0.90[CHB][hapmap]
rs9523473	0.85[CHB][hapmap]
rs9523474	0.90[CHB][hapmap]
rs9556129	0.85[CHB][hapmap];0.91[CHD][hapmap];0.80[JPT][hapmap];0.85[ASN][1000 genomes]
rs9556131	0.81[CHB][hapmap]
rs9560895	0.90[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378326	chr13:92445514-92816367	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv900883	chr13:92481236-92602622	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv900884	chr13:92548841-92595572	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	n/a	n/a	inside rSNPs	n/a
4	nsv900885	chr13:92561714-92621620	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv528318	chr13:92575622-92607374	Weak transcription Enhancers ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv974114	chr13:92575980-92586164	Enhancers ZNF genes & repeats Weak transcription	n/a	n/a	inside rSNPs	n/a
7	nsv900886	chr13:92576149-92626399	Enhancers ZNF genes & repeats Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
8	esv10926	chr13:92577389-92586920	Weak transcription Enhancers ZNF genes & repeats	n/a	n/a	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs2352195	GPC6	cis	cerebellum	SCAN
rs2352195	GPC5	cis	cerebellum	SCAN

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

No data

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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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