Variant report

Variant	rs7025328
Chromosome Location	chr9:3301744-3301745
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 153 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:143)

rs_ID	r²[population]
rs10429463	0.90[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs1147822	0.92[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.81[EUR][1000 genomes]
rs11998979	0.92[CEU][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs12004313	0.87[EUR][1000 genomes]
rs12004744	0.92[CEU][hapmap];0.88[CHB][hapmap];0.90[JPT][hapmap]
rs13296552	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs1443205	0.85[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16916423	0.87[ASW][hapmap];0.92[CEU][hapmap];0.81[JPT][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.81[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs17658724	0.90[EUR][1000 genomes]
rs17658838	0.92[CEU][hapmap];0.88[CHB][hapmap];0.81[JPT][hapmap];0.91[MEX][hapmap];0.85[EUR][1000 genomes]
rs17715051	0.82[MEX][hapmap];0.86[TSI][hapmap];0.80[EUR][1000 genomes]
rs17715160	0.85[CEU][hapmap];0.82[CHB][hapmap];0.87[EUR][1000 genomes]
rs17715317	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.82[MEX][hapmap];0.93[TSI][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17715329	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2274487	1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs2304928	0.94[EUR][1000 genomes]
rs2920363	0.88[EUR][1000 genomes]
rs2920364	0.89[ASN][1000 genomes]
rs2920366	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2920368	0.91[ASN][1000 genomes]
rs2920369	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2920370	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2920375	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2920376	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs2920377	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2920378	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2920379	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2920380	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2920381	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes]
rs2920382	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs2920383	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2986678	1.00[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs2986679	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2986680	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2986684	1.00[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs2986686	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.86[TSI][hapmap];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2986687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2986688	0.81[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2986690	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2986691	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2986693	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2986694	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2986695	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2986696	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2986697	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2986698	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2986699	0.91[ASN][1000 genomes]
rs2986700	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2986701	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2986702	0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2986703	0.92[EUR][1000 genomes]
rs2991297	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2991298	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2991300	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[GIH][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2991301	1.00[CEU][hapmap];0.89[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2991302	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2991304	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs2991305	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2991306	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2991307	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2991308	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2991309	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2991310	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2991311	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2991314	1.00[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs2991315	1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs2991317	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2991318	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs2991319	1.00[CHB][hapmap];0.91[JPT][hapmap]
rs2991320	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2991321	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2991322	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2991323	1.00[CHB][hapmap]
rs3012670	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs3012672	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs3012686	0.91[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs3012688	0.92[CEU][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes]
rs3012692	0.85[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3012693	0.86[ASW][hapmap];0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.91[JPT][hapmap];0.82[MEX][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs3012694	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3012695	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3012696	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3012697	0.92[CEU][hapmap];0.88[CHB][hapmap];0.86[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3012700	0.92[CEU][hapmap];0.89[CHB][hapmap];0.91[JPT][hapmap];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3012701	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs3012702	0.89[ASN][1000 genomes]
rs3012705	0.89[EUR][1000 genomes]
rs3012706	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3012707	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs3012708	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs3012709	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[ASN][1000 genomes]
rs3012710	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3012711	1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs3012712	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[EUR][1000 genomes]
rs3012713	1.00[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs4008965	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs41312820	0.84[EUR][1000 genomes]
rs4495486	0.84[ASN][1000 genomes]
rs490961	0.92[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap]
rs494348	0.84[CEU][hapmap];0.86[CHB][hapmap];0.89[JPT][hapmap]
rs506149	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs515913	0.91[JPT][hapmap]
rs540859	0.82[EUR][1000 genomes]
rs57295144	0.95[EUR][1000 genomes]
rs576347	0.86[EUR][1000 genomes]
rs58010475	0.91[EUR][1000 genomes]
rs59378342	0.90[EUR][1000 genomes]
rs594370	0.92[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap]
rs612198	0.91[CEU][hapmap];0.87[EUR][1000 genomes]
rs617047	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap];0.82[EUR][1000 genomes]
rs617992	0.92[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap];0.87[EUR][1000 genomes]
rs619401	0.92[CEU][hapmap];0.88[CHB][hapmap];1.00[JPT][hapmap]
rs625941	0.92[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap]
rs633893	0.92[CEU][hapmap];0.88[CHB][hapmap];0.81[JPT][hapmap];0.81[EUR][1000 genomes]
rs636548	0.92[CEU][hapmap];0.91[GIH][hapmap]
rs649990	0.92[CEU][hapmap]
rs656686	0.92[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap];0.83[EUR][1000 genomes]
rs658123	0.92[CEU][hapmap];0.88[CHB][hapmap];0.91[JPT][hapmap];0.92[MEX][hapmap]
rs66573713	0.83[ASN][1000 genomes]
rs7025201	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7035429	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[EUR][1000 genomes]
rs7044448	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72699004	0.92[EUR][1000 genomes]
rs72699014	0.92[EUR][1000 genomes]
rs72699023	0.90[EUR][1000 genomes]
rs72699033	0.89[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs72699037	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs72699039	0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72699041	0.97[ASN][1000 genomes]
rs72699050	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs72699051	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72699063	0.84[EUR][1000 genomes]
rs7850653	0.89[CHB][hapmap];0.83[ASN][1000 genomes]
rs7850660	1.00[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7850999	0.92[CEU][hapmap];1.00[GIH][hapmap];0.81[EUR][1000 genomes]
rs7855364	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs7859468	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7860020	0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7861667	1.00[CHB][hapmap];0.83[ASN][1000 genomes]
rs7861699	1.00[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs7866129	0.83[EUR][1000 genomes]
rs7868041	0.84[EUR][1000 genomes]
rs7871277	1.00[CHB][hapmap];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892086	chr9:3012276-3410838	Bivalent Enhancer ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv1032921	chr9:3139007-3502815	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv539940	chr9:3139007-3502815	Strong transcription Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv466090	chr9:3237378-3349487	Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv613145	chr9:3237378-3349487	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv1032529	chr9:3254763-3319778	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv539941	chr9:3254763-3319778	Strong transcription Weak transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv531566	chr9:3288211-3545454	Weak transcription Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
9	nsv892089	chr9:3290569-3578094	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
10	esv2762782	chr9:3301744-3302446	Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:3244200-3338400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
2	chr9:3265600-3332000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr9:3272000-3302800	Weak transcription	Ovary	ovary
4	chr9:3277400-3310600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr9:3277400-3337400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr9:3286600-3307000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr9:3288000-3305600	Weak transcription	Pancreatic Islets	Pancreatic Islet
8	chr9:3288200-3309000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr9:3288200-3378400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr9:3288600-3318800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr9:3290800-3309200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr9:3291400-3338600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
13	chr9:3291800-3318800	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr9:3293200-3329600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr9:3293400-3312800	Weak transcription	Primary T cells from cord blood	blood
16	chr9:3293400-3312800	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr9:3293400-3318800	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr9:3293600-3352600	Weak transcription	Primary hematopoietic stem cells	blood
19	chr9:3294800-3321200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr9:3297000-3312600	Weak transcription	Aorta	Aorta
21	chr9:3300200-3308200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr9:3300200-3320000	Weak transcription	Primary B cells from peripheral blood	blood
23	chr9:3300400-3307000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr9:3300800-3307200	Weak transcription	Primary B cells from cord blood	blood
25	chr9:3301400-3302400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
26	chr9:3301400-3303800	Weak transcription	GM12878-XiMat	blood

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