Variant report

Variant	rs17128168
Chromosome Location	chr10:112702438-112702439
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	chr10:112678195..112680843-chr10:112702190..112705152,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000108061	Chromatin interaction
ENSG00000214413	Chromatin interaction

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10509932	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1052550	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10732804	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10749055	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10749056	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10749057	0.86[AFR][1000 genomes]
rs10787296	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1571240	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17128095	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17128194	0.89[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2273934	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3750620	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs44336	0.95[EUR][1000 genomes]
rs4545475	0.89[EUR][1000 genomes]
rs4917592	0.83[AFR][1000 genomes]
rs4918615	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6585023	0.91[ASN][1000 genomes]
rs6585028	0.81[AFR][1000 genomes];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7101351	0.86[AFR][1000 genomes]
rs7913363	0.86[EUR][1000 genomes];0.83[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:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112680600-112706800	Weak transcription	Esophagus	oesophagus
2	chr10:112680800-112704600	Weak transcription	Aorta	Aorta
3	chr10:112681000-112704600	Weak transcription	Right Ventricle	heart
4	chr10:112682000-112704600	Weak transcription	Brain Hippocampus Middle	brain
5	chr10:112682000-112708400	Weak transcription	Primary monocytes fromperipheralblood	blood
6	chr10:112682000-112732400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr10:112684400-112712600	Weak transcription	HepG2	liver
8	chr10:112685200-112719200	Weak transcription	A549	lung
9	chr10:112689400-112704600	Weak transcription	Left Ventricle	heart
10	chr10:112689600-112714400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr10:112690200-112707800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr10:112691800-112703600	Weak transcription	Rectal Smooth Muscle	rectum
13	chr10:112692000-112703200	Weak transcription	Liver	Liver
14	chr10:112692000-112722000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr10:112692400-112703600	Weak transcription	NHLF	lung
16	chr10:112692400-112704000	Weak transcription	Adipose Nuclei	Adipose
17	chr10:112692400-112704600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr10:112692400-112705400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
19	chr10:112692400-112719000	Weak transcription	Duodenum Smooth Muscle	Duodenum
20	chr10:112692400-112719000	Weak transcription	Stomach Smooth Muscle	stomach
21	chr10:112692400-112724000	Weak transcription	Stomach Mucosa	stomach
22	chr10:112692600-112703200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr10:112692600-112703200	Weak transcription	Osteobl	bone
24	chr10:112692600-112704600	Weak transcription	Psoas Muscle	Psoas
25	chr10:112692600-112705000	Weak transcription	Fetal Heart	heart
26	chr10:112692600-112705000	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr10:112692600-112706400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr10:112692600-112713600	Weak transcription	Hela-S3	cervix
29	chr10:112692600-112732400	Weak transcription	Fetal Intestine Large	intestine
30	chr10:112693000-112706800	Weak transcription	Placenta Amnion	Placenta Amnion
31	chr10:112693400-112704600	Weak transcription	NHEK	skin
32	chr10:112693600-112704600	Weak transcription	HMEC	breast
33	chr10:112693600-112706800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr10:112693600-112706800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr10:112693600-112719200	Weak transcription	Small Intestine	intestine
36	chr10:112693600-112722000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr10:112694600-112703000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr10:112695000-112703200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr10:112695200-112709000	Weak transcription	Fetal Muscle Trunk	muscle
40	chr10:112695400-112703400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
41	chr10:112695400-112722400	Weak transcription	Colonic Mucosa	Colon
42	chr10:112697000-112703400	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr10:112697000-112704600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr10:112697000-112704600	Weak transcription	Spleen	Spleen
45	chr10:112697000-112706800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
46	chr10:112697200-112706400	Weak transcription	Gastric	stomach
47	chr10:112697200-112706800	Weak transcription	Lung	lung
48	chr10:112697200-112720400	Weak transcription	Ovary	ovary
49	chr10:112697200-112740200	Weak transcription	Thymus	Thymus
50	chr10:112697200-112745400	Weak transcription	Duodenum Mucosa	Duodenum

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