Variant report

Variant	rs2408714
Chromosome Location	chr12:47537699-47537700
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10785658	0.90[CEU][hapmap]
rs10785659	0.90[EUR][1000 genomes]
rs10785660	0.83[CHB][hapmap]
rs10881049	0.90[EUR][1000 genomes]
rs10881050	0.89[EUR][1000 genomes]
rs10881051	0.95[CEU][hapmap];0.84[CHB][hapmap];0.81[JPT][hapmap];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10881053	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11183755	0.91[CEU][hapmap]
rs11183756	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11183774	0.81[CEU][hapmap]
rs11612285	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12371765	0.91[CEU][hapmap]
rs12578367	0.95[CEU][hapmap];0.89[CHB][hapmap];0.90[JPT][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12578995	0.90[CEU][hapmap]
rs12579796	0.95[CEU][hapmap];0.84[CHB][hapmap];0.81[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12810420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12830116	0.95[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1357935	0.85[CEU][hapmap]
rs1404812	0.95[CEU][hapmap];0.85[CHB][hapmap];0.82[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1404813	0.83[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1404814	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1404819	0.95[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1404820	0.90[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1404821	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1525444	0.91[CEU][hapmap]
rs1525452	0.82[CEU][hapmap];0.92[EUR][1000 genomes]
rs1581560	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1880600	0.82[CEU][hapmap]
rs1917662	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1917663	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1949864	0.91[CEU][hapmap]
rs2091294	0.95[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2091295	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2222609	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2408715	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4529959	0.84[EUR][1000 genomes]
rs4533118	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4544084	0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4598738	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4768775	0.95[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4768777	0.90[CEU][hapmap]
rs55651541	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7484989	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7958186	0.90[CEU][hapmap]
rs7963822	0.90[CEU][hapmap]
rs9634260	1.00[CEU][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv469368	chr12:47374908-47675680	Enhancers Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv558784	chr12:47374908-47675680	Genic enhancers Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
3	nsv832399	chr12:47502910-47689601	Genic enhancers Enhancers Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:47505800-47538600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr12:47506200-47538400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr12:47508400-47545200	Weak transcription	HSMMtube	muscle
4	chr12:47517400-47538400	Weak transcription	Primary T helper cells fromperipheralblood	blood
5	chr12:47527000-47547800	Weak transcription	Ovary	ovary
6	chr12:47529600-47542600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr12:47531800-47538000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr12:47533400-47541800	Weak transcription	Osteobl	bone
9	chr12:47533600-47538600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr12:47533600-47538600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr12:47533600-47542200	Weak transcription	Spleen	Spleen
12	chr12:47533800-47542200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr12:47535800-47538200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr12:47535800-47549600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
15	chr12:47535800-47554600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr12:47536000-47540400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr12:47536000-47549600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr12:47536000-47550000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr12:47536000-47550200	Weak transcription	Adipose Nuclei	Adipose
20	chr12:47536000-47550200	Weak transcription	Aorta	Aorta
21	chr12:47536000-47578000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr12:47536200-47538200	Weak transcription	Primary T cells from cord blood	blood
23	chr12:47536200-47538400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr12:47536200-47538800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
25	chr12:47536200-47564200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr12:47536400-47549400	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr12:47537400-47538800	Enhancers	Primary T helper cells PMA-I stimulated	--
28	chr12:47537600-47540000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood

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