Variant report

Variant	rs10446325
Chromosome Location	chr3:143068463-143068464
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10804689	0.92[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs10804690	0.92[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs10804691	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10935488	0.85[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs10935489	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11915857	0.92[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12493355	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1393071	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs1501628	0.92[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs1501629	0.92[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs1550547	0.84[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs16853428	0.92[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16853431	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1837784	0.92[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs2165518	0.92[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs2352725	0.92[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs2883015	0.92[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs6440163	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6440164	0.92[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs6768217	0.92[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs6769555	0.92[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs6806677	0.92[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs729509	0.93[ASN][1000 genomes]
rs729511	0.84[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs7632299	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7652901	0.84[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9332458	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs968586	0.92[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs968587	0.84[CHB][hapmap];0.89[JPT][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	esv2757894	chr3:142992697-143285979	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv2759184	chr3:142992697-143285979	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv877564	chr3:143059952-143116883	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv3518531	chr3:143068444-143070888	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
6	esv3518532	chr3:143068444-143070888	Weak transcription Enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143063600-143076400	Weak transcription	Brain Anterior Caudate	brain
2	chr3:143064600-143070800	Weak transcription	Ovary	ovary
3	chr3:143066000-143069000	Enhancers	Primary T helper cells PMA-I stimulated	--
4	chr3:143066200-143069200	Enhancers	Primary T helper cells fromperipheralblood	blood
5	chr3:143066400-143068600	Enhancers	Primary T helper naive cells from peripheral blood	blood
6	chr3:143066400-143068800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr3:143066600-143068600	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr3:143066800-143069000	Enhancers	Primary B cells from peripheral blood	blood
9	chr3:143066800-143069000	Enhancers	Primary T cells fromperipheralblood	blood
10	chr3:143067000-143069200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
11	chr3:143067200-143069400	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
12	chr3:143067400-143068600	Enhancers	GM12878-XiMat	blood
13	chr3:143067400-143068800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
14	chr3:143067600-143068800	Enhancers	Primary T regulatory cells fromperipheralblood	blood
15	chr3:143067600-143069200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
16	chr3:143068000-143069000	Enhancers	Primary T cells from cord blood	blood
17	chr3:143068000-143069200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr3:143068000-143071600	Weak transcription	Monocytes-CD14+_RO01746	blood
19	chr3:143068000-143072000	Weak transcription	Placenta	Placenta
20	chr3:143068200-143070400	Weak transcription	Primary B cells from cord blood	blood
21	chr3:143068200-143071600	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr3:143068200-143071800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:143068200-143078400	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr3:143068200-143091800	Weak transcription	Lung	lung
25	chr3:143068400-143069600	Weak transcription	Dnd41	blood
26	chr3:143068400-143070800	Weak transcription	Fetal Thymus	thymus
27	chr3:143068400-143071200	Weak transcription	Primary hematopoietic stem cells	blood

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