Variant report

Variant	rs10260654
Chromosome Location	chr7:50191216-50191217
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10228836	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10235301	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10241289	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10250629	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10267578	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11185600	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11971651	0.88[CHB][hapmap]
rs11980886	0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12672941	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12673071	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12718245	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12718246	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13229373	0.88[CHB][hapmap]
rs13239674	0.82[CHB][hapmap]
rs13239786	0.88[CHB][hapmap]
rs13241637	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13247946	0.86[CHB][hapmap]
rs1384634	0.80[CHB][hapmap]
rs1396280	0.88[CHB][hapmap]
rs1456906	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1601033	0.87[CHB][hapmap]
rs17133694	0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17133709	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap];0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1870030	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1982535	0.83[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2220065	0.87[CHB][hapmap]
rs28508243	0.92[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap]
rs34733935	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34984574	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35254219	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35570047	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36129824	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778764	0.88[CHB][hapmap]
rs3891340	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4092362	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4496918	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6583408	0.87[CHB][hapmap]
rs6583409	0.87[CHB][hapmap]
rs6943189	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6944097	0.88[CHB][hapmap]
rs6968612	0.88[CHB][hapmap]
rs7797137	0.88[CHB][hapmap]
rs7798067	0.88[CHB][hapmap]
rs7800478	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7805656	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs998928	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv464444	chr7:49671882-50454736	Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv606897	chr7:49671883-50454736	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv498090	chr7:49708644-50427714	Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1020869	chr7:49712860-50457544	Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:50173600-50192800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:50182600-50193200	Enhancers	Primary B cells from cord blood	blood
3	chr7:50184400-50193400	Enhancers	Primary B cells from peripheral blood	blood
4	chr7:50185400-50193400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr7:50185400-50193600	Enhancers	Primary hematopoietic stem cells	blood
6	chr7:50186600-50195400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr7:50188000-50192000	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr7:50189200-50195200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr7:50189200-50195400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr7:50189200-50203400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr7:50189600-50195200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr7:50189600-50195400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr7:50189600-50195400	Weak transcription	Dnd41	blood
14	chr7:50189800-50192600	Weak transcription	GM12878-XiMat	blood
15	chr7:50189800-50195200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr7:50189800-50195400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr7:50190000-50195200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr7:50190200-50195200	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr7:50190400-50191600	Weak transcription	Fetal Thymus	thymus
20	chr7:50190400-50192000	Weak transcription	Thymus	Thymus
21	chr7:50190800-50195200	Weak transcription	Primary T cells from cord blood	blood
22	chr7:50191000-50194000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr7:50191200-50192600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

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