Variant report

Variant	rs887792
Chromosome Location	chr4:26993739-26993740
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:26992638..26994590-chr4:27000990..27003803,2	MCF-7	breast:

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10028164	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10031905	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1035075	1.00[EUR][1000 genomes]
rs1860981	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2192241	1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2309497	1.00[EUR][1000 genomes]
rs28489605	1.00[EUR][1000 genomes]
rs4129747	1.00[EUR][1000 genomes]
rs4140681	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4599399	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4692016	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4692017	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4692018	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4692135	0.93[AMR][1000 genomes]
rs4692138	1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55646519	1.00[EUR][1000 genomes]
rs56001106	1.00[EUR][1000 genomes]
rs56810203	1.00[EUR][1000 genomes]
rs57668778	1.00[EUR][1000 genomes]
rs57810647	1.00[EUR][1000 genomes]
rs59530500	1.00[EUR][1000 genomes]
rs59678983	1.00[EUR][1000 genomes]
rs61084398	1.00[EUR][1000 genomes]
rs6448489	0.88[AMR][1000 genomes]
rs6448490	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6841079	1.00[EUR][1000 genomes]
rs6858361	1.00[EUR][1000 genomes]
rs73116642	1.00[EUR][1000 genomes]
rs73116643	1.00[EUR][1000 genomes]
rs73116645	1.00[EUR][1000 genomes]
rs73116652	1.00[EUR][1000 genomes]
rs73116653	1.00[EUR][1000 genomes]
rs73116655	1.00[EUR][1000 genomes]
rs73116657	1.00[EUR][1000 genomes]
rs73116660	1.00[EUR][1000 genomes]
rs73116665	1.00[EUR][1000 genomes]
rs73116670	1.00[EUR][1000 genomes]
rs73116672	1.00[EUR][1000 genomes]
rs73116675	1.00[EUR][1000 genomes]
rs7670520	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7688601	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs887794	1.00[YRI][hapmap];0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9790760	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9994911	0.88[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1000568	chr4:26886920-27049554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26961800-26994000	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr4:26963600-26994200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:26966600-26994600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
4	chr4:26975800-27003200	Weak transcription	Aorta	Aorta
5	chr4:26978000-26994600	Weak transcription	Fetal Stomach	stomach
6	chr4:26978400-27019200	Weak transcription	Fetal Intestine Small	intestine
7	chr4:26980400-26994800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr4:26980400-27019400	Weak transcription	Left Ventricle	heart
9	chr4:26985400-27019400	Weak transcription	Esophagus	oesophagus
10	chr4:26986000-26994400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr4:26986200-26994400	Weak transcription	Right Atrium	heart
12	chr4:26986400-26994600	Weak transcription	Small Intestine	intestine
13	chr4:26987800-26994000	Weak transcription	Primary hematopoietic stem cells	blood
14	chr4:26987800-26994000	Weak transcription	Muscle Satellite Cultured Cells	--
15	chr4:26987800-26994000	Weak transcription	Osteobl	bone
16	chr4:26988400-26994600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
17	chr4:26988400-26998000	Weak transcription	Dnd41	blood
18	chr4:26988800-26994000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr4:26989000-26993800	Weak transcription	Fetal Heart	heart
20	chr4:26989000-26994000	Weak transcription	Primary T cells fromperipheralblood	blood
21	chr4:26989000-26994200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr4:26989000-26994400	Weak transcription	HSMM	muscle
23	chr4:26989000-27010000	Weak transcription	Thymus	Thymus
24	chr4:26989000-27010400	Weak transcription	Fetal Thymus	thymus
25	chr4:26989200-26994600	Weak transcription	Pancreas	Pancrea
26	chr4:26989400-26994000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr4:26989400-26994200	Weak transcription	HSMMtube	muscle
28	chr4:26989400-26994600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr4:26989400-26996000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
30	chr4:26989400-26997000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr4:26989400-27024800	Weak transcription	Psoas Muscle	Psoas
32	chr4:26989600-27027000	Weak transcription	HepG2	liver
33	chr4:26989800-26994000	Weak transcription	Rectal Smooth Muscle	rectum
34	chr4:26992600-26994200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr4:26992800-26993800	Enhancers	Primary B cells from cord blood	blood
36	chr4:26992800-26994000	Enhancers	Primary B cells from peripheral blood	blood
37	chr4:26993000-26994000	Enhancers	GM12878-XiMat	blood
38	chr4:26993200-26994000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
39	chr4:26993200-26994200	Enhancers	Primary T helper cells PMA-I stimulated	--
40	chr4:26993200-26995000	Enhancers	Cortex derived primary cultured neurospheres	brain
41	chr4:26993200-26996800	Enhancers	Fetal Lung	lung
42	chr4:26993200-26997000	Enhancers	Primary T killer memory cells from peripheral blood	blood
43	chr4:26993200-26997200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
44	chr4:26993400-26995200	Weak transcription	Brain Germinal Matrix	brain
45	chr4:26993400-26995400	Enhancers	Primary hematopoietic stem cells short term culture	blood
46	chr4:26993400-26996000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
47	chr4:26993400-26996200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
48	chr4:26993400-26996800	Enhancers	Colon Smooth Muscle	Colon
49	chr4:26993400-26997000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
50	chr4:26993400-26997000	Enhancers	Brain Hippocampus Middle	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links