Variant report

Variant	rs6774203
Chromosome Location	chr3:160705217-160705218
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:83)

rs_ID	r²[population]
rs10433352	0.83[CHD][hapmap]
rs10513558	0.81[JPT][hapmap];0.80[YRI][hapmap]
rs10513560	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10936216	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12494673	0.81[JPT][hapmap];0.83[YRI][hapmap]
rs12498008	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs12690576	0.83[CEU][hapmap];0.84[TSI][hapmap]
rs13086445	0.89[YRI][hapmap]
rs13325518	0.87[CHD][hapmap];0.87[JPT][hapmap]
rs1374786	0.88[ASN][1000 genomes]
rs1374787	0.83[CEU][hapmap];0.80[CHD][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes]
rs1447608	1.00[CEU][hapmap];0.81[JPT][hapmap];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1447609	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1530635	0.88[ASN][1000 genomes]
rs1530636	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1562465	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1562466	0.87[CHB][hapmap];0.87[CHD][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs1580253	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1580254	0.81[CHD][hapmap];0.87[JPT][hapmap];0.83[TSI][hapmap];0.82[AMR][1000 genomes]
rs1599382	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs16831758	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs1868108	0.83[CEU][hapmap]
rs1868109	0.83[CEU][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes]
rs1971240	0.82[CHB][hapmap];0.87[JPT][hapmap]
rs2061580	0.82[CHB][hapmap];0.84[CHD][hapmap];0.87[JPT][hapmap]
rs2121721	0.83[ASW][hapmap];1.00[CEU][hapmap];0.98[GIH][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.97[TSI][hapmap];0.96[EUR][1000 genomes]
rs2376476	0.85[EUR][1000 genomes]
rs2376477	0.86[EUR][1000 genomes]
rs2889391	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs34462546	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34884182	0.81[AMR][1000 genomes]
rs4608736	0.88[ASN][1000 genomes]
rs4679927	0.88[ASN][1000 genomes]
rs4679928	0.85[EUR][1000 genomes]
rs58189630	0.87[ASN][1000 genomes]
rs6441344	0.80[YRI][hapmap]
rs6441345	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.94[JPT][hapmap];0.92[MEX][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6441346	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6763532	0.87[CHB][hapmap];0.86[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6769927	0.82[AMR][1000 genomes]
rs6770180	1.00[CEU][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6787694	0.82[CHB][hapmap];0.87[CHD][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs6791375	0.80[AMR][1000 genomes]
rs6798966	0.87[ASN][1000 genomes]
rs6808311	0.82[AMR][1000 genomes]
rs6808386	1.00[CEU][hapmap];0.87[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs733948	0.83[CEU][hapmap];0.84[TSI][hapmap]
rs7611005	0.85[EUR][1000 genomes]
rs7613316	1.00[CEU][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7616249	1.00[CEU][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.80[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7626904	0.87[EUR][1000 genomes]
rs7626985	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs7628389	0.82[CHD][hapmap]
rs7635796	1.00[CEU][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[EUR][1000 genomes]
rs7640874	1.00[CEU][hapmap];0.87[JPT][hapmap];0.87[EUR][1000 genomes]
rs7644586	1.00[CEU][hapmap];0.87[JPT][hapmap];0.93[EUR][1000 genomes]
rs778644	0.88[ASN][1000 genomes]
rs778647	0.82[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs778650	0.87[CHD][hapmap];0.88[ASN][1000 genomes]
rs778651	0.82[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs778652	0.80[CHB][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs778655	0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs778656	0.88[ASN][1000 genomes]
rs778658	0.86[ASN][1000 genomes]
rs778661	0.86[ASN][1000 genomes]
rs778662	0.88[ASN][1000 genomes]
rs796610	0.82[CHB][hapmap];0.89[CHD][hapmap];0.87[JPT][hapmap];0.88[ASN][1000 genomes]
rs814092	0.88[ASN][1000 genomes]
rs898676	0.81[CHB][hapmap];0.87[JPT][hapmap]
rs898677	0.80[CHD][hapmap]
rs898682	0.87[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs956447	0.83[CEU][hapmap]
rs9813700	0.94[EUR][1000 genomes]
rs9818081	0.82[CHB][hapmap];0.89[CHD][hapmap];0.87[JPT][hapmap]
rs9832109	0.80[CHD][hapmap]
rs9839984	0.84[CHD][hapmap];0.87[JPT][hapmap];0.83[TSI][hapmap];0.81[AMR][1000 genomes]
rs9840600	0.92[CEU][hapmap];0.88[CHB][hapmap];0.87[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9846254	0.92[CEU][hapmap];0.88[CHB][hapmap];0.89[GIH][hapmap];0.81[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs9857743	1.00[CEU][hapmap];0.87[JPT][hapmap];0.95[EUR][1000 genomes]
rs9858335	0.95[CHD][hapmap];0.87[JPT][hapmap];0.83[TSI][hapmap];0.82[AMR][1000 genomes]
rs9860182	0.96[CEU][hapmap];0.88[CHB][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.87[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9873705	0.82[AMR][1000 genomes]
rs9881807	0.83[CEU][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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv1007004	chr3:160695108-160718154	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs6774203	C3orf57	cis	parietal	SCAN
rs6774203	PPM1L	cis	cerebellum	SCAN
rs6774203	B3GALNT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160697200-160710600	Weak transcription	Left Ventricle	heart
2	chr3:160704200-160708600	Weak transcription	Stomach Smooth Muscle	stomach
3	chr3:160704800-160706000	Enhancers	Pancreas	Pancrea
4	chr3:160704800-160706000	Enhancers	Right Atrium	heart
5	chr3:160705000-160720000	Weak transcription	Gastric	stomach
6	chr3:160705200-160706600	Enhancers	Pancreatic Islets	Pancreatic Islet

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