Variant report

Variant	rs11250797
Chromosome Location	chr10:238841-238842
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:236283..239568-chr10:240498..242911,3	MCF-7	breast:
2	chr10:178849..183706-chr10:235112..239544,5	MCF-7	breast:
3	chr10:180649..183609-chr10:237438..240674,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000015171	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10508201	0.84[JPT][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs10736951	0.83[JPT][hapmap]
rs10903692	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10903844	0.85[CHB][hapmap];0.82[JPT][hapmap]
rs11250289	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11250292	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11250419	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11250488	0.84[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11250528	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11250529	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11250575	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11250790	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11251173	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11592007	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11592027	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11594308	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11599450	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12357593	1.00[CHB][hapmap]
rs12360337	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1476130	0.84[EUR][1000 genomes]
rs17221197	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17221225	0.83[JPT][hapmap];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17221239	0.88[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17221260	1.00[CHB][hapmap];0.82[JPT][hapmap]
rs2379049	0.83[EUR][1000 genomes]
rs2436030	0.81[EUR][1000 genomes]
rs2448364	0.84[JPT][hapmap];0.88[EUR][1000 genomes]
rs2448366	0.84[JPT][hapmap];0.87[EUR][1000 genomes]
rs2448371	0.87[EUR][1000 genomes]
rs2448373	0.86[EUR][1000 genomes]
rs2448380	0.84[EUR][1000 genomes]
rs2448381	0.84[EUR][1000 genomes]
rs2448384	0.84[JPT][hapmap];0.84[EUR][1000 genomes]
rs2496275	0.84[JPT][hapmap];0.83[EUR][1000 genomes]
rs2496278	0.81[EUR][1000 genomes]
rs55825001	0.81[AMR][1000 genomes]
rs56217646	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56335464	0.81[AMR][1000 genomes]
rs61836334	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61836335	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61836338	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7089302	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7090608	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7896421	0.80[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap]
rs7912326	0.88[CEU][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9419432	0.88[EUR][1000 genomes]
rs9419496	0.86[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:31 , 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
6	nsv1047925	chr10:224406-316839	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv915562	chr10:224406-332407	ZNF genes & repeats Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
8	nsv530502	chr10:224406-352113	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
9	nsv817282	chr10:224406-358626	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
10	nsv1041536	chr10:224406-370879	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
11	nsv540389	chr10:224406-370879	Weak transcription Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
12	nsv949174	chr10:224406-437940	Strong transcription Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
13	nsv1046703	chr10:224406-461742	Enhancers ZNF genes & repeats Weak transcription Genic enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
14	nsv540380	chr10:224406-461742	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
15	nsv817534	chr10:224406-503460	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
16	nsv1045404	chr10:224406-520269	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
17	nsv1042404	chr10:224406-567104	Genic enhancers Enhancers Strong transcription Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
18	nsv540381	chr10:224406-567104	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
19	nsv1046313	chr10:224406-691123	Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
20	nsv540385	chr10:224406-691123	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
21	nsv1036501	chr10:224406-775824	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
22	nsv1052660	chr10:224406-785929	Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
23	nsv1043752	chr10:224406-789665	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
24	nsv916363	chr10:224406-816628	ZNF genes & repeats Weak transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
25	nsv916591	chr10:224406-1088734	Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	38 gene(s)	inside rSNPs	diseases
26	nsv540386	chr10:224406-1197416	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
27	nsv1039358	chr10:225071-406871	Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
28	nsv540390	chr10:225071-406871	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
29	nsv492071	chr10:226083-291562	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
30	nsv530114	chr10:226083-596534	ZNF genes & repeats Weak transcription Strong transcription Enhancers Bivalent Enhancer Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
31	nsv1048660	chr10:235885-330323	Strong transcription Genic enhancers Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:109 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:208200-293000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr10:218200-242800	Weak transcription	Fetal Brain Male	brain
3	chr10:220600-280800	Weak transcription	Gastric	stomach
4	chr10:223600-242800	Weak transcription	Aorta	Aorta
5	chr10:224200-250000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
6	chr10:225000-256200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
7	chr10:225000-287400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr10:225200-240200	Weak transcription	Hela-S3	cervix
9	chr10:225200-264400	Weak transcription	Brain Angular Gyrus	brain
10	chr10:225600-264800	Weak transcription	Brain Substantia Nigra	brain
11	chr10:225600-287400	Weak transcription	Right Ventricle	heart
12	chr10:225600-292400	Weak transcription	Thymus	Thymus
13	chr10:225800-254600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr10:226000-242600	Weak transcription	Placenta Amnion	Placenta Amnion
15	chr10:226000-242800	Weak transcription	Esophagus	oesophagus
16	chr10:226800-265600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
17	chr10:227200-240000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr10:227200-242800	Weak transcription	Spleen	Spleen
19	chr10:227600-256200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr10:229200-247200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
21	chr10:229400-252400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
22	chr10:229400-255800	Weak transcription	Placenta	Placenta
23	chr10:229400-271600	Weak transcription	Lung	lung
24	chr10:229600-242800	Weak transcription	Liver	Liver
25	chr10:229600-283600	Weak transcription	Brain Anterior Caudate	brain
26	chr10:229800-246000	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr10:230000-241800	Weak transcription	Brain Germinal Matrix	brain
28	chr10:230000-242800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr10:230000-255600	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr10:230000-256200	Weak transcription	Cortex derived primary cultured neurospheres	brain
31	chr10:230000-261400	Weak transcription	Sigmoid Colon	Sigmoid Colon
32	chr10:230200-265400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
33	chr10:230800-239600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
34	chr10:230800-240400	Weak transcription	HMEC	breast
35	chr10:230800-246000	Weak transcription	NHEK	skin
36	chr10:230800-247000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr10:230800-254400	Weak transcription	Fetal Brain Female	brain
38	chr10:231000-254400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
39	chr10:231000-256000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr10:231200-239400	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr10:231200-239600	Weak transcription	Primary B cells from peripheral blood	blood
42	chr10:231200-240400	Weak transcription	Primary T helper cells PMA-I stimulated	--
43	chr10:231200-240600	Weak transcription	HepG2	liver
44	chr10:231200-256200	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr10:231200-256200	Weak transcription	GM12878-XiMat	blood
46	chr10:231200-259400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr10:231200-264200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr10:231200-283400	Weak transcription	Fetal Thymus	thymus
49	chr10:231200-285000	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr10:231400-243000	Weak transcription	Fetal Kidney	kidney

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