Variant report

Variant	rs7909028
Chromosome Location	chr10:175308-175309
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:132310..134849-chr10:173480..175409,2	MCF-7	breast:
2	chr10:156667..158237-chr10:173423..176164,2	K562	blood:
3	chr10:167772..170758-chr10:173854..175773,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10508201	0.82[TSI][hapmap]
rs10736951	0.86[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap]
rs10794721	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11250289	0.87[EUR][1000 genomes]
rs11250292	0.89[EUR][1000 genomes]
rs11250419	0.87[EUR][1000 genomes]
rs11250488	0.83[EUR][1000 genomes]
rs11250528	0.82[EUR][1000 genomes]
rs11250529	0.84[EUR][1000 genomes]
rs11250790	0.87[CEU][hapmap];0.92[JPT][hapmap];0.87[TSI][hapmap]
rs11250797	0.91[JPT][hapmap]
rs11592007	0.80[EUR][1000 genomes]
rs11592027	0.80[EUR][1000 genomes]
rs11594308	0.89[EUR][1000 genomes]
rs1476130	0.83[ASW][hapmap];1.00[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.93[LWK][hapmap];0.91[MEX][hapmap];0.98[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17221239	0.87[CEU][hapmap];0.84[JPT][hapmap]
rs2379049	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2436028	0.85[YRI][hapmap]
rs2436030	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2436031	0.84[YRI][hapmap]
rs2448364	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2448366	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.89[LWK][hapmap];0.91[MEX][hapmap];0.87[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2448371	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2448373	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs2448380	1.00[CEU][hapmap];0.84[YRI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2448381	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2448384	0.83[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.88[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.91[MEX][hapmap];0.95[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2496275	0.88[ASW][hapmap];1.00[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.94[LWK][hapmap];0.95[MEX][hapmap];0.95[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2496278	0.92[CEU][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.91[TSI][hapmap];0.80[YRI][hapmap];0.81[EUR][1000 genomes]
rs3131995	0.80[AMR][1000 genomes]
rs4275539	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4331015	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4369322	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4880809	0.97[AFR][1000 genomes];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs56217646	0.80[EUR][1000 genomes]
rs61836334	0.80[EUR][1000 genomes]
rs61836335	0.80[EUR][1000 genomes]
rs7089302	0.80[EUR][1000 genomes]
rs7089889	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7476951	0.84[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs7919162	1.00[CEU][hapmap];0.90[CHB][hapmap];0.92[CHD][hapmap];0.93[GIH][hapmap];0.92[JPT][hapmap];0.94[LWK][hapmap];0.82[MEX][hapmap];0.95[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.81[AMR][1000 genomes]
rs7919436	1.00[CEU][hapmap];0.90[CHB][hapmap];0.91[JPT][hapmap];0.95[YRI][hapmap];0.81[AMR][1000 genomes]
rs9419432	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9419493	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9419496	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];0.82[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	nsv531919	chr10:60001-668649	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1040332	chr10:72797-244561	Strong transcription Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1044775	chr10:72797-250662	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1047868	chr10:72797-259003	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	nsv1048232	chr10:72797-274675	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr10:174000-175600	Enhancers	Primary T cells from cord blood	blood
2	chr10:174000-179200	Weak transcription	Right Atrium	heart
3	chr10:174000-179600	Weak transcription	Duodenum Mucosa	Duodenum
4	chr10:174000-179800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr10:174200-180000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
6	chr10:174400-175600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr10:174400-175600	Weak transcription	GM12878-XiMat	blood
8	chr10:174400-178200	Weak transcription	Dnd41	blood
9	chr10:174400-178600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr10:174400-178600	Weak transcription	HUVEC	blood vessel
11	chr10:174400-179000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr10:174400-179400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr10:174400-179400	Weak transcription	Primary T helper cells PMA-I stimulated	--
14	chr10:174400-179400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr10:174400-179600	Weak transcription	Primary hematopoietic stem cells	blood
16	chr10:174400-179600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr10:174400-179800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr10:174400-179800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr10:174400-179800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr10:174600-179800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr10:175000-176400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr10:175200-175800	Enhancers	Colon Smooth Muscle	Colon
23	chr10:175200-175800	Enhancers	Fetal Heart	heart
24	chr10:175200-176000	Enhancers	Duodenum Smooth Muscle	Duodenum
25	chr10:175200-176400	Bivalent Enhancer	Primary monocytes fromperipheralblood	blood
26	chr10:175200-176400	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr10:175200-176600	Bivalent Enhancer	Monocytes-CD14+_RO01746	blood
28	chr10:175200-177400	Weak transcription	Fetal Stomach	stomach

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