Variant report

Variant	rs10254695
Chromosome Location	chr7:126908258-126908259
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs10225587	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10226889	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10228722	0.80[MEX][hapmap]
rs10246314	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10247396	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10255618	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10269524	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10270765	0.82[CEU][hapmap];0.83[TSI][hapmap];0.82[EUR][1000 genomes]
rs10487473	0.94[GIH][hapmap];0.80[MEX][hapmap]
rs1111182	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11980484	0.82[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12706771	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs12706772	0.80[MEX][hapmap]
rs13222063	0.80[MEX][hapmap]
rs13231840	0.82[CEU][hapmap]
rs13246388	0.88[GIH][hapmap];0.80[MEX][hapmap]
rs1592376	0.86[MEX][hapmap]
rs1592377	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs17862334	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.97[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17862337	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.82[JPT][hapmap];0.81[TSI][hapmap];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17863254	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs17863255	0.80[MEX][hapmap]
rs17863259	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17864178	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17867808	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17869568	0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1858774	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2097608	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4141414	0.82[CEU][hapmap]
rs4141415	0.82[CEU][hapmap];0.81[GIH][hapmap];0.80[TSI][hapmap];0.81[EUR][1000 genomes]
rs55647740	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs55734624	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6948480	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs6954027	0.82[CEU][hapmap];0.80[EUR][1000 genomes]
rs7776557	0.87[CEU][hapmap]
rs7777222	1.00[GIH][hapmap];0.86[MEX][hapmap]
rs7792594	0.82[CEU][hapmap]
rs7793635	0.82[CEU][hapmap]
rs7793907	0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7794751	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7797094	0.80[MEX][hapmap]
rs7797935	0.82[CEU][hapmap]
rs916597	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs950373	0.88[GIH][hapmap];0.80[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv889189	chr7:126699088-126963028	Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv464712	chr7:126881029-126908258	Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv608380	chr7:126881029-126908258	Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10254695	FSCN3	cis	cerebellum	SCAN
rs10254695	PAX4	cis	cerebellum	SCAN
rs10254695	GRM8	cis	parietal	SCAN
rs10254695	C17orf54	trans	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:126905200-126910200	Weak transcription	Pancreatic Islets	Pancreatic Islet

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