Variant report

Variant	rs10099656
Chromosome Location	chr8:48507687-48507688
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:48507124..48508721-chr8:48509922..48512866,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10086266	1.00[AMR][1000 genomes]
rs10090740	1.00[ASW][hapmap];1.00[MEX][hapmap]
rs10093950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10102782	1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10104074	1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10106803	0.93[YRI][hapmap];0.83[AFR][1000 genomes]
rs10108990	0.85[AFR][1000 genomes]
rs10110049	1.00[YRI][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10111833	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[YRI][hapmap]
rs10111963	0.92[YRI][hapmap];1.00[AFR][1000 genomes]
rs11987727	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11989844	1.00[MEX][hapmap]
rs11993708	1.00[AMR][1000 genomes]
rs11997023	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs28366397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28407704	0.88[AFR][1000 genomes]
rs28408352	1.00[AMR][1000 genomes]
rs28439682	1.00[AFR][1000 genomes]
rs28583978	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28587193	1.00[AMR][1000 genomes]
rs28603312	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28683713	0.85[AFR][1000 genomes]
rs28812531	1.00[AMR][1000 genomes]
rs28895958	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28897086	1.00[AMR][1000 genomes]
rs6980675	1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs6982040	0.87[AFR][1000 genomes]
rs6994360	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap]
rs7003614	0.82[AFR][1000 genomes]
rs7010172	0.85[AFR][1000 genomes]
rs7014936	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs73677550	0.85[AFR][1000 genomes]
rs7819424	0.81[AFR][1000 genomes]
rs7821542	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs7823419	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs8178117	0.81[AFR][1000 genomes]
rs8178185	0.81[AFR][1000 genomes]
rs8178253	0.83[AFR][1000 genomes]
rs9657080	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3693377	chr8:47824261-48582964	Genic enhancers Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
2	nsv491863	chr8:48053825-48586176	Strong transcription Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv1025674	chr8:48306843-48548862	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv890848	chr8:48405007-48535622	Flanking Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
5	nsv470211	chr8:48405007-48545961	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv1027043	chr8:48444306-48637900	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
7	nsv539596	chr8:48444306-48637900	ZNF genes & repeats Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
8	nsv1029297	chr8:48468835-48530803	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv1030163	chr8:48468835-48544495	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv971650	chr8:48497808-48507906	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	esv1803608	chr8:48506628-48874811	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS 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	27 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:48466800-48522600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr8:48473000-48511400	Weak transcription	Primary T cells from cord blood	blood
3	chr8:48481200-48513600	Weak transcription	Primary B cells from peripheral blood	blood
4	chr8:48496600-48513400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr8:48498600-48522600	Weak transcription	Fetal Stomach	stomach
6	chr8:48500200-48511400	Weak transcription	Fetal Intestine Small	intestine
7	chr8:48502000-48510800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr8:48503400-48508200	Weak transcription	Primary B cells from cord blood	blood
9	chr8:48503600-48535000	Weak transcription	Dnd41	blood
10	chr8:48503800-48515600	Weak transcription	Fetal Intestine Large	intestine
11	chr8:48504400-48511200	Weak transcription	Duodenum Mucosa	Duodenum
12	chr8:48504800-48511400	Weak transcription	Aorta	Aorta
13	chr8:48505000-48514800	Weak transcription	Thymus	Thymus
14	chr8:48505200-48511400	Weak transcription	Adipose Nuclei	Adipose
15	chr8:48505200-48512800	Weak transcription	Osteobl	bone
16	chr8:48506400-48513400	Weak transcription	A549	lung
17	chr8:48506400-48522600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr8:48506600-48508000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr8:48506600-48508000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr8:48506600-48509800	Weak transcription	Primary neutrophils fromperipheralblood	blood
21	chr8:48506600-48509800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr8:48506600-48510200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
23	chr8:48506600-48510200	Weak transcription	Esophagus	oesophagus
24	chr8:48506600-48510400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr8:48506600-48510400	Weak transcription	Fetal Muscle Trunk	muscle
26	chr8:48506600-48510400	Weak transcription	Rectal Mucosa Donor 29	rectum
27	chr8:48506600-48510800	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr8:48506600-48510800	Weak transcription	Monocytes-CD14+_RO01746	blood
29	chr8:48506600-48511400	Weak transcription	Spleen	Spleen
30	chr8:48506600-48511600	Weak transcription	Lung	lung
31	chr8:48506600-48512600	Weak transcription	Placenta Amnion	Placenta Amnion
32	chr8:48506600-48513200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr8:48506600-48513600	Weak transcription	Colonic Mucosa	Colon
34	chr8:48506600-48513800	Weak transcription	Placenta	Placenta
35	chr8:48506600-48514000	Weak transcription	Small Intestine	intestine
36	chr8:48506600-48516800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
37	chr8:48506600-48516800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr8:48506600-48517000	Weak transcription	Gastric	stomach
39	chr8:48506600-48525400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr8:48506600-48530600	Weak transcription	HepG2	liver
41	chr8:48506800-48507800	Enhancers	Muscle Satellite Cultured Cells	--
42	chr8:48507200-48510400	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr8:48507200-48511600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr8:48507200-48513400	Weak transcription	NHLF	lung
45	chr8:48507200-48514200	Weak transcription	Pancreas	Pancrea
46	chr8:48507200-48522600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
47	chr8:48507400-48510600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
48	chr8:48507400-48513600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
49	chr8:48507600-48507800	Enhancers	HSMM	muscle
50	chr8:48507600-48514400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links