Variant report

Variant	rs10950875
Chromosome Location	chr7:21835071-21835072
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs1011950	0.96[CEU][hapmap];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1018918	0.96[CEU][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap]
rs10226098	0.96[CEU][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10226244	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10230246	0.96[CEU][hapmap];0.86[YRI][hapmap];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10233735	0.85[YRI][hapmap]
rs10233760	0.96[CEU][hapmap];0.81[YRI][hapmap];0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10239296	0.95[CEU][hapmap]
rs10254975	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10255013	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10256263	0.90[CEU][hapmap]
rs10258448	0.91[CEU][hapmap];0.89[YRI][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10270774	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10276109	0.89[YRI][hapmap];0.80[AFR][1000 genomes]
rs10277757	0.92[CEU][hapmap];0.86[TSI][hapmap]
rs10807808	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs10950878	0.96[CEU][hapmap]
rs10950879	0.92[CEU][hapmap]
rs11982250	0.87[AFR][1000 genomes]
rs12700308	0.96[CEU][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap]
rs13231851	0.96[CEU][hapmap]
rs17145488	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1962775	0.96[CEU][hapmap]
rs1962776	0.96[CEU][hapmap]
rs1974508	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1974509	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2014193	0.96[CEU][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap]
rs2072093	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2189023	0.96[CEU][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap]
rs2214325	0.96[CEU][hapmap]
rs2214326	0.96[CEU][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap]
rs339	0.88[CHB][hapmap]
rs34540475	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35471448	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs35922142	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3735522	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs3925303	0.81[ASW][hapmap];0.82[GIH][hapmap];0.81[MKK][hapmap]
rs4141347	0.96[CEU][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap]
rs4582443	0.92[CEU][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs6461602	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6954167	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6954728	0.92[CEU][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6969900	0.96[CEU][hapmap];0.92[MEX][hapmap];0.84[TSI][hapmap];0.89[EUR][1000 genomes]
rs7780479	0.96[CEU][hapmap];0.92[MEX][hapmap];0.97[TSI][hapmap];0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7780746	0.96[CEU][hapmap];0.88[CHD][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7787438	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7788531	0.92[CEU][hapmap];0.92[MEX][hapmap];0.84[TSI][hapmap];0.86[YRI][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7792944	0.96[CEU][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap]
rs7801909	0.88[CEU][hapmap];0.85[EUR][1000 genomes]
rs7803777	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7804316	0.96[CEU][hapmap];0.92[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9638792	0.85[EUR][1000 genomes]
rs9639398	0.88[CEU][hapmap];0.85[EUR][1000 genomes]

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	nsv1018133	chr7:21740118-22055283	Active TSS Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
2	nsv830922	chr7:21793386-21964675	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10950875	IL6	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:21834400-21848600	Weak transcription	Cortex derived primary cultured neurospheres	brain

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