Variant report

Variant	rs10269172
Chromosome Location	chr7:3954641-3954642
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:3947932..3950368-chr7:3952794..3955461,2	MCF-7	breast:
2	chr7:3953782..3957860-chr7:3959035..3961864,3	K562	blood:

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10226220	1.00[AMR][1000 genomes]
rs10232161	1.00[AMR][1000 genomes]
rs10232222	1.00[AMR][1000 genomes]
rs10232460	1.00[AMR][1000 genomes]
rs10232479	1.00[AMR][1000 genomes]
rs10235415	1.00[AMR][1000 genomes]
rs10236208	1.00[AMR][1000 genomes]
rs10236726	1.00[AMR][1000 genomes]
rs10237072	1.00[AMR][1000 genomes]
rs10237207	1.00[AMR][1000 genomes]
rs10239119	1.00[AMR][1000 genomes]
rs10239349	1.00[AMR][1000 genomes]
rs10239755	1.00[AMR][1000 genomes]
rs10240764	1.00[AMR][1000 genomes]
rs10240770	1.00[AMR][1000 genomes]
rs10240776	1.00[AMR][1000 genomes]
rs10246377	1.00[AMR][1000 genomes]
rs10248032	1.00[AMR][1000 genomes]
rs10249486	1.00[AMR][1000 genomes]
rs10249617	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10250749	1.00[AMR][1000 genomes]
rs10250969	1.00[AMR][1000 genomes]
rs10251860	1.00[AMR][1000 genomes]
rs10254942	1.00[AMR][1000 genomes]
rs10260973	1.00[AMR][1000 genomes]
rs10261101	1.00[AMR][1000 genomes]
rs10262755	1.00[AMR][1000 genomes]
rs10262756	1.00[AMR][1000 genomes]
rs10264034	1.00[AMR][1000 genomes]
rs10265265	1.00[AMR][1000 genomes]
rs10269554	1.00[AMR][1000 genomes]
rs10271361	1.00[AMR][1000 genomes]
rs10271525	1.00[AMR][1000 genomes]
rs10274442	1.00[AMR][1000 genomes]
rs10274450	1.00[AMR][1000 genomes]
rs10277140	1.00[AMR][1000 genomes]
rs10277615	1.00[AMR][1000 genomes]
rs10277730	1.00[AMR][1000 genomes]
rs10281035	1.00[AMR][1000 genomes]
rs10282240	1.00[AMR][1000 genomes]
rs10282727	1.00[AMR][1000 genomes]
rs12333491	1.00[AMR][1000 genomes]
rs12333534	1.00[AMR][1000 genomes]
rs16871049	1.00[AMR][1000 genomes]
rs28408018	1.00[AMR][1000 genomes]
rs28462157	1.00[AMR][1000 genomes]
rs28491068	1.00[AMR][1000 genomes]
rs28496653	1.00[AMR][1000 genomes]
rs28507850	1.00[AMR][1000 genomes]
rs28532947	1.00[AMR][1000 genomes]
rs28541657	1.00[AMR][1000 genomes]
rs28554772	1.00[AMR][1000 genomes]
rs28560779	1.00[AMR][1000 genomes]
rs28568652	1.00[AMR][1000 genomes]
rs28578945	1.00[AMR][1000 genomes]
rs28581916	1.00[AMR][1000 genomes]
rs28656287	1.00[AMR][1000 genomes]
rs28656426	1.00[AMR][1000 genomes]
rs28715920	1.00[AMR][1000 genomes]
rs34758548	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56740561	1.00[AMR][1000 genomes]
rs57744825	1.00[AMR][1000 genomes]
rs57761987	1.00[AMR][1000 genomes]
rs57981062	1.00[AMR][1000 genomes]
rs58587403	1.00[AMR][1000 genomes]
rs59292244	1.00[AMR][1000 genomes]
rs59408720	1.00[AMR][1000 genomes]
rs60180277	1.00[AMR][1000 genomes]
rs60409549	1.00[AMR][1000 genomes]
rs9655002	1.00[AMR][1000 genomes]
rs9655328	1.00[AMR][1000 genomes]
rs9655329	1.00[AMR][1000 genomes]
rs9655341	1.00[AMR][1000 genomes]
rs9655342	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021650	chr7:3665232-4577439	Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1029406	chr7:3860894-4477095	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv538685	chr7:3860894-4477095	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1026410	chr7:3869104-4383606	Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1025497	chr7:3905444-4176032	Enhancers Strong transcription ZNF genes & repeats Genic enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv538686	chr7:3905444-4176032	Enhancers Weak transcription Strong transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv433014	chr7:3910039-4054769	Strong transcription Enhancers Weak transcription Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv518377	chr7:3939055-3978342	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv1030082	chr7:3941203-3986403	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv1020222	chr7:3946655-3985756	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1027500	chr7:3949954-3986403	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv1024445	chr7:3954131-3982653	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:3901200-3959600	Weak transcription	Pancreas	Pancrea
2	chr7:3936800-3974200	Weak transcription	Aorta	Aorta
3	chr7:3948200-3955000	Weak transcription	Spleen	Spleen
4	chr7:3950600-3955600	Weak transcription	Brain Angular Gyrus	brain
5	chr7:3950600-3955800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr7:3951000-3955400	Weak transcription	Brain Hippocampus Middle	brain
7	chr7:3951000-3955600	Weak transcription	Brain Substantia Nigra	brain
8	chr7:3951000-3955800	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr7:3952200-3957800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
10	chr7:3952200-3959400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr7:3952200-3960600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr7:3952400-3955200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr7:3952400-3955400	Weak transcription	NHEK	skin
14	chr7:3952400-3955600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr7:3952400-3955600	Weak transcription	NH-A	brain
16	chr7:3952400-3955800	Weak transcription	Adipose Nuclei	Adipose
17	chr7:3952400-3955800	Weak transcription	Brain Anterior Caudate	brain
18	chr7:3952400-3963200	Weak transcription	Lung	lung
19	chr7:3952600-3956000	Weak transcription	Brain Cingulate Gyrus	brain
20	chr7:3952600-3956200	Weak transcription	Primary B cells from cord blood	blood
21	chr7:3952800-3957000	Weak transcription	Fetal Muscle Trunk	muscle
22	chr7:3952800-3958000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr7:3953000-3955600	Weak transcription	Cortex derived primary cultured neurospheres	brain
24	chr7:3953000-3959000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr7:3953400-3956000	Enhancers	Monocytes-CD14+_RO01746	blood
26	chr7:3953400-3957400	Enhancers	HepG2	liver
27	chr7:3953400-3957800	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr7:3953600-3954800	Enhancers	Fetal Muscle Leg	muscle
29	chr7:3953600-3954800	Enhancers	Placenta	Placenta
30	chr7:3954000-3954800	Enhancers	HSMMtube	muscle
31	chr7:3954000-3955000	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
32	chr7:3954200-3954800	Enhancers	Pancreatic Islets	Pancreatic Islet
33	chr7:3954200-3956200	Enhancers	Fetal Lung	lung
34	chr7:3954600-3956200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

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