Variant report

Variant	rs2237780
Chromosome Location	chr7:126674192-126674193
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs1006728	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs10225883	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs10252623	0.94[ASN][1000 genomes]
rs10954144	0.94[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.94[TSI][hapmap]
rs11563506	0.91[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11563708	0.85[JPT][hapmap]
rs11563717	0.85[JPT][hapmap]
rs11563719	0.84[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap]
rs11563728	0.84[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap]
rs11760208	0.84[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap]
rs12375090	0.94[GIH][hapmap];0.94[TSI][hapmap]
rs1361963	0.85[CHB][hapmap];0.93[JPT][hapmap]
rs1419424	0.81[CHD][hapmap];0.86[JPT][hapmap]
rs1419446	1.00[CHB][hapmap];0.85[JPT][hapmap]
rs17863189	0.88[ASN][1000 genomes]
rs17864101	0.91[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17864136	0.85[JPT][hapmap]
rs17864137	0.85[JPT][hapmap]
rs1894731	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2010184	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2237784	0.84[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap]
rs2237786	0.84[CEU][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.97[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.97[TSI][hapmap]
rs2237789	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2237790	0.89[CHB][hapmap];0.90[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.91[TSI][hapmap]
rs2237791	0.84[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap]
rs2237792	0.86[JPT][hapmap]
rs2283090	0.94[CHB][hapmap];0.94[CHD][hapmap];0.86[JPT][hapmap]
rs2283091	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2283092	0.94[CHB][hapmap];0.94[CHD][hapmap];0.86[JPT][hapmap]
rs2283093	0.84[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap]
rs2283095	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2283096	0.86[JPT][hapmap]
rs2299525	0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2299530	0.94[CHB][hapmap];0.85[JPT][hapmap]
rs2299535	0.84[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap]
rs2299537	0.84[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap]
rs2299538	0.84[CHD][hapmap];0.94[GIH][hapmap];0.86[JPT][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap]
rs2299539	0.85[JPT][hapmap]
rs2299541	0.84[CHD][hapmap];0.94[GIH][hapmap];0.85[JPT][hapmap];0.84[MEX][hapmap];0.81[TSI][hapmap]
rs3808122	1.00[CHB][hapmap];1.00[CHD][hapmap];0.86[JPT][hapmap]
rs3808126	0.92[ASN][1000 genomes]
rs3808127	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3824009	0.91[CEU][hapmap];0.97[GIH][hapmap];0.81[MEX][hapmap];0.93[TSI][hapmap]
rs4141410	0.85[CHB][hapmap];0.93[JPT][hapmap]
rs6467104	0.87[ASN][1000 genomes]
rs6467105	0.95[ASN][1000 genomes]
rs6942923	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs6949620	0.86[JPT][hapmap]
rs6950012	0.95[ASN][1000 genomes]
rs6964926	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs6975798	0.85[CHB][hapmap];0.93[JPT][hapmap]
rs6978939	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs6979287	0.94[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap]
rs6979572	0.89[CHB][hapmap];0.82[CHD][hapmap];0.94[TSI][hapmap]
rs7778276	0.85[CHB][hapmap];0.93[JPT][hapmap]
rs7778308	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7791539	0.81[CHD][hapmap];0.86[JPT][hapmap]
rs7792406	0.90[CHB][hapmap];0.93[JPT][hapmap]
rs951111	1.00[CHB][hapmap];0.93[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758132	chr7:126494789-126677843	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv2759562	chr7:126494789-126677843	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv427805	chr7:126494789-126677843	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv831121	chr7:126593363-126774413	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2237780	SND1	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:126673800-126674600	Enhancers	Rectal Mucosa Donor 31	rectum
2	chr7:126674000-126674400	Enhancers	Liver	Liver
3	chr7:126674000-126676000	Enhancers	Fetal Kidney	kidney

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