Variant report

Variant	rs10885068
Chromosome Location	chr10:112713815-112713816
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:112492319..112495062-chr10:112713544..112716355,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10444029	0.85[ASN][1000 genomes]
rs10787288	0.86[EUR][1000 genomes]
rs10885062	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10885063	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10885066	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10885067	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10885070	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10885074	0.82[CEU][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes]
rs10885077	0.83[CEU][hapmap];0.80[JPT][hapmap]
rs10885079	0.85[ASN][1000 genomes]
rs11195360	0.91[CEU][hapmap];0.83[EUR][1000 genomes]
rs11195382	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11195400	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11195406	0.88[ASN][1000 genomes]
rs12416020	0.83[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[YRI][hapmap];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1327549	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1327551	1.00[CEU][hapmap];0.94[CHB][hapmap];0.94[JPT][hapmap];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1327555	0.88[ASN][1000 genomes]
rs1407696	0.91[CEU][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4335469	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4597005	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4918612	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4918613	1.00[CEU][hapmap];0.93[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4918614	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs521674	0.83[JPT][hapmap];0.84[YRI][hapmap]
rs638019	0.83[JPT][hapmap]
rs7079511	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7901832	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7904892	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7909407	0.85[ASN][1000 genomes]
rs7915073	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7915214	0.91[CEU][hapmap];0.88[CHB][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051566	chr10:112580049-112730573	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv1035602	chr10:112636053-112781413	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv1051327	chr10:112650316-112772917	ZNF genes & repeats Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking 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 miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv540774	chr10:112650316-112772917	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers 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 miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv831985	chr10:112652089-112803103	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
6	nsv1047865	chr10:112660427-112730573	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv1048809	chr10:112683822-112781413	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
8	nsv1042020	chr10:112686323-112795159	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:88 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112682000-112732400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr10:112685200-112719200	Weak transcription	A549	lung
3	chr10:112689600-112714400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
4	chr10:112692000-112722000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr10:112692400-112719000	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr10:112692400-112719000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr10:112692400-112724000	Weak transcription	Stomach Mucosa	stomach
8	chr10:112692600-112732400	Weak transcription	Fetal Intestine Large	intestine
9	chr10:112693600-112719200	Weak transcription	Small Intestine	intestine
10	chr10:112693600-112722000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
11	chr10:112695400-112722400	Weak transcription	Colonic Mucosa	Colon
12	chr10:112697200-112720400	Weak transcription	Ovary	ovary
13	chr10:112697200-112740200	Weak transcription	Thymus	Thymus
14	chr10:112697200-112745400	Weak transcription	Duodenum Mucosa	Duodenum
15	chr10:112698000-112724000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr10:112700600-112764000	Weak transcription	Placenta	Placenta
17	chr10:112701200-112726800	Weak transcription	Dnd41	blood
18	chr10:112702200-112722000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
19	chr10:112702400-112754800	Weak transcription	Rectal Mucosa Donor 31	rectum
20	chr10:112703600-112721400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr10:112703800-112718200	Weak transcription	Liver	Liver
22	chr10:112703800-112720800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr10:112703800-112724200	Weak transcription	Primary T cells fromperipheralblood	blood
24	chr10:112703800-112725800	Weak transcription	HUVEC	blood vessel
25	chr10:112703800-112729000	Weak transcription	Brain Cingulate Gyrus	brain
26	chr10:112704600-112714600	Weak transcription	Brain Angular Gyrus	brain
27	chr10:112704800-112719000	Weak transcription	Colon Smooth Muscle	Colon
28	chr10:112705200-112789800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
29	chr10:112705400-112721200	Weak transcription	Primary T helper cells fromperipheralblood	blood
30	chr10:112705600-112714000	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr10:112705800-112716800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr10:112705800-112719000	Weak transcription	Adipose Nuclei	Adipose
33	chr10:112705800-112725400	Weak transcription	Primary neutrophils fromperipheralblood	blood
34	chr10:112707000-112719000	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr10:112707200-112714600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr10:112707200-112716800	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr10:112707200-112719000	Weak transcription	NHDF-Ad	bronchial
38	chr10:112707200-112724000	Weak transcription	Right Ventricle	heart
39	chr10:112707200-112724200	Weak transcription	Gastric	stomach
40	chr10:112707200-112724400	Weak transcription	Aorta	Aorta
41	chr10:112707200-112725400	Weak transcription	Osteobl	bone
42	chr10:112707200-112726200	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr10:112707200-112732200	Weak transcription	Pancreas	Pancrea
44	chr10:112707200-112732200	Weak transcription	NHEK	skin
45	chr10:112707200-112732400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr10:112707200-112737600	Weak transcription	Psoas Muscle	Psoas
47	chr10:112707200-112738800	Weak transcription	NH-A	brain
48	chr10:112707200-112755000	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr10:112707200-112784200	Weak transcription	Left Ventricle	heart
50	chr10:112709000-112714800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood

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