Variant report

Variant	rs3755547
Chromosome Location	chr2:160998792-160998793
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr2:160997618..161000119-chr2:161002297..161003869,2	MCF-7	breast:
2	chr2:160997062..160999873-chr2:161011563..161014295,2	MCF-7	breast:
3	chr2:160997193..161000864-chr2:161081939..161085480,4	MCF-7	breast:
4	chr2:160998766..161001076-chr2:161004659..161006213,2	K562	blood:
5	chr2:160993718..160995794-chr2:160997568..160999439,2	MCF-7	breast:

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10171644	1.00[CEU][hapmap];0.96[YRI][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10176194	0.90[CHD][hapmap];0.94[JPT][hapmap]
rs10179610	0.94[CHB][hapmap];0.93[CHD][hapmap];0.82[GIH][hapmap]
rs10184041	0.95[EUR][1000 genomes]
rs10193774	0.92[EUR][1000 genomes]
rs10197183	1.00[CEU][hapmap];0.96[YRI][hapmap];0.95[EUR][1000 genomes]
rs10202454	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.93[TSI][hapmap]
rs10205374	0.95[EUR][1000 genomes]
rs10497208	0.93[YRI][hapmap]
rs10929971	0.93[YRI][hapmap]
rs1156821	0.94[CHB][hapmap];0.90[CHD][hapmap];0.82[GIH][hapmap]
rs11890075	0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs11896610	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11897691	0.93[YRI][hapmap]
rs11902965	0.93[YRI][hapmap]
rs12469192	0.86[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12470622	0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12477682	0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12478021	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs12616323	0.95[EUR][1000 genomes]
rs13027372	0.93[YRI][hapmap]
rs13390820	0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs13394453	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.84[AFR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13401953	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13403826	0.94[ASW][hapmap];0.94[CHB][hapmap];0.97[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs13413256	1.00[CEU][hapmap];0.96[YRI][hapmap];0.95[EUR][1000 genomes]
rs13413895	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13426637	1.00[CEU][hapmap];0.96[YRI][hapmap];0.95[EUR][1000 genomes]
rs13429856	0.87[ASN][1000 genomes]
rs13432255	0.84[ASN][1000 genomes]
rs13432522	0.87[ASN][1000 genomes]
rs1457235	0.82[YRI][hapmap]
rs1457238	0.93[YRI][hapmap]
rs1457239	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.88[MKK][hapmap];0.93[TSI][hapmap];0.96[YRI][hapmap];0.95[EUR][1000 genomes]
rs16844726	0.86[JPT][hapmap]
rs16844824	0.82[YRI][hapmap]
rs16844830	0.89[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1902622	0.93[YRI][hapmap]
rs2124971	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];0.93[TSI][hapmap];0.93[YRI][hapmap];0.95[EUR][1000 genomes]
rs2168672	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes]
rs2290706	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.93[YRI][hapmap];0.95[EUR][1000 genomes]
rs2667026	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs3109389	0.94[JPT][hapmap]
rs34761275	0.87[ASN][1000 genomes]
rs4337434	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4473342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4630719	0.95[EUR][1000 genomes]
rs56011055	0.95[EUR][1000 genomes]
rs57594443	0.95[EUR][1000 genomes]
rs59236613	0.86[ASN][1000 genomes]
rs61377083	0.86[ASN][1000 genomes]
rs62175554	0.87[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs6432594	0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6432600	0.93[YRI][hapmap]
rs6432601	0.92[YRI][hapmap]
rs6432602	0.93[YRI][hapmap]
rs6432609	0.95[EUR][1000 genomes]
rs6730023	1.00[CEU][hapmap];1.00[GIH][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes]
rs6735425	0.85[ASN][1000 genomes]
rs6747699	0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs6758074	0.94[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.87[ASN][1000 genomes]
rs6760500	0.87[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs72994790	0.95[EUR][1000 genomes]
rs7563574	0.93[YRI][hapmap]
rs7563802	0.95[EUR][1000 genomes]
rs7572338	0.95[EUR][1000 genomes]
rs7579481	0.93[YRI][hapmap]
rs7584446	0.93[YRI][hapmap]
rs7586660	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7590004	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7596372	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7599127	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7603920	0.89[EUR][1000 genomes]
rs7608557	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs897832	0.92[YRI][hapmap]
rs925409	0.87[JPT][hapmap]
rs9973856	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv459929	chr2:160963603-161079435	Enhancers Active TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv583497	chr2:160963603-161079435	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv875346	chr2:160965335-161044155	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv1001502	chr2:160967864-161079450	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv528083	chr2:160998792-161015066	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:160959200-161004200	Weak transcription	Gastric	stomach
2	chr2:160959400-161032800	Weak transcription	Psoas Muscle	Psoas
3	chr2:160983200-161005200	Weak transcription	Rectal Mucosa Donor 31	rectum
4	chr2:160990000-161005000	Weak transcription	Colonic Mucosa	Colon
5	chr2:160993200-161002200	Weak transcription	Lung	lung
6	chr2:160993600-160998800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr2:160994400-160999000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr2:160994400-161002000	Weak transcription	Esophagus	oesophagus
9	chr2:160994400-161002000	Weak transcription	Fetal Intestine Large	intestine
10	chr2:160994400-161004200	Weak transcription	Fetal Muscle Leg	muscle
11	chr2:160994400-161014800	Weak transcription	Rectal Mucosa Donor 29	rectum
12	chr2:160994400-161037400	Weak transcription	Pancreas	Pancrea
13	chr2:160994600-161038000	Weak transcription	Fetal Muscle Trunk	muscle
14	chr2:160994800-161001000	Weak transcription	Skeletal Muscle Male	skeletal muscle
15	chr2:160994800-161002000	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr2:160995000-160999000	Genic enhancers	HSMM	muscle
17	chr2:160996200-160999200	Enhancers	Osteobl	bone
18	chr2:160996400-160999000	Enhancers	HSMMtube	muscle
19	chr2:160996800-160999000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr2:160997000-160999000	Weak transcription	Stomach Mucosa	stomach
21	chr2:160997200-160998800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr2:160997200-160999200	Enhancers	NHLF	lung
23	chr2:160997200-160999600	Enhancers	Muscle Satellite Cultured Cells	--
24	chr2:160997200-161002000	Weak transcription	Fetal Intestine Small	intestine
25	chr2:160997200-161014600	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr2:160997200-161021800	Weak transcription	Duodenum Mucosa	Duodenum
27	chr2:160997600-161001000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
28	chr2:160997800-160999000	Enhancers	Fetal Lung	lung
29	chr2:160997800-160999400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr2:160998000-160998800	Strong transcription	NHEK	skin
31	chr2:160998000-160999200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr2:160998000-160999800	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
33	chr2:160998400-160999200	Enhancers	Colon Smooth Muscle	Colon
34	chr2:160998400-160999200	Enhancers	Sigmoid Colon	Sigmoid Colon
35	chr2:160998400-160999400	Enhancers	A549	lung
36	chr2:160998600-160998800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr2:160998600-160999000	Strong transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr2:160998600-160999200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
39	chr2:160998600-160999200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
40	chr2:160998600-160999200	Enhancers	Fetal Kidney	kidney
41	chr2:160998600-160999400	Enhancers	Placenta	Placenta
42	chr2:160998600-161001000	Genic enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links