Variant report

Variant	rs9489325
Chromosome Location	chr6:118554463-118554464
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1034247	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13199882	0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs169465	1.00[CEU][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap]
rs1889465	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1889466	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1931976	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2050312	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2050313	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs205917	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs205918	0.81[EUR][1000 genomes]
rs205919	0.81[EUR][1000 genomes]
rs205920	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs205923	0.91[ASN][1000 genomes]
rs2065707	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2095406	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2105021	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2184365	1.00[CHB][hapmap];0.85[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2356078	1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs281859	1.00[CEU][hapmap]
rs281862	1.00[CEU][hapmap]
rs281865	1.00[CEU][hapmap]
rs281871	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs283043	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs283058	1.00[CEU][hapmap];0.87[CHD][hapmap]
rs283060	1.00[CEU][hapmap]
rs283063	1.00[CEU][hapmap]
rs283064	1.00[CEU][hapmap];0.87[CHD][hapmap]
rs283090	1.00[CEU][hapmap];0.87[CHD][hapmap];0.96[GIH][hapmap]
rs283092	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2883847	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2883848	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs383574	0.91[ASN][1000 genomes]
rs401172	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs406031	1.00[CEU][hapmap]
rs412995	0.91[ASN][1000 genomes]
rs4245500	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs429084	0.85[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs430538	0.85[CEU][hapmap];0.87[CHD][hapmap]
rs444666	0.85[CEU][hapmap];0.87[CHD][hapmap]
rs454842	0.85[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs455227	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs455338	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs456384	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs457162	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs457210	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs458588	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs460399	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs465226	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4945614	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4945615	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4945617	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4946328	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6911094	1.00[CHB][hapmap];0.85[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6917963	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6921633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6921657	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6923286	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6933344	1.00[CHB][hapmap];0.85[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.91[ASN][1000 genomes]
rs7748215	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7768436	1.00[CHB][hapmap];0.85[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.92[TSI][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs928598	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs928599	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9320645	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9481771	0.91[ASN][1000 genomes]
rs9481772	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9489323	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9489324	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs980916	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530526	chr6:118027339-118718476	Weak transcription Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv428153	chr6:118430517-118586974	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1030089	chr6:118436482-118604516	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv538427	chr6:118436482-118604516	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv532051	chr6:118551027-119044197	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:118546400-118564000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr6:118553200-118557800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr6:118553400-118564200	Weak transcription	Fetal Brain Female	brain

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