Variant report

Variant	rs66810260
Chromosome Location	chr3:136293057-136293058
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 63 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs13433980	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1484250	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs16843991	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs28682370	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs34962604	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35644083	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs3932048	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4336059	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4402873	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs55993001	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56040643	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs56047785	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs56125228	0.83[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs59931907	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6439642	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6763239	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6765239	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6769934	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6772759	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6782151	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6788346	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs6789541	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6789761	0.84[EUR][1000 genomes]
rs6799368	0.85[AMR][1000 genomes]
rs6800969	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6806795	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7612160	0.80[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7615706	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7621017	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7621970	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7623824	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7626418	0.85[EUR][1000 genomes]
rs7627292	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7629905	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7644346	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7644471	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7648591	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9812319	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9818372	0.87[EUR][1000 genomes]
rs9820513	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs9828068	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9832572	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9834631	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9845950	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9858457	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9866535	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9869361	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9869957	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9876771	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9877786	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948461	chr3:135969755-136349636	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv877520	chr3:136056861-136310985	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
3	nsv877521	chr3:136069286-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv877523	chr3:136088038-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv520012	chr3:136088038-136314119	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
6	nsv877524	chr3:136112109-136295283	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
7	nsv877525	chr3:136112109-136310985	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	nsv877526	chr3:136149139-136310985	ZNF genes & repeats Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
9	nsv877527	chr3:136182053-136310985	Weak transcription Strong transcription Enhancers ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
10	nsv877528	chr3:136209550-136295283	Weak transcription Strong transcription ZNF genes & repeats Enhancers Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
11	nsv591850	chr3:136209550-136300732	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
12	nsv460861	chr3:136222954-136425600	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
13	nsv591851	chr3:136222954-136425600	Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:136176400-136314200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr3:136212200-136323400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr3:136213000-136326600	Weak transcription	Sigmoid Colon	Sigmoid Colon
4	chr3:136247200-136319800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr3:136247200-136334800	Weak transcription	Aorta	Aorta
6	chr3:136248200-136349200	Weak transcription	Rectal Smooth Muscle	rectum
7	chr3:136251400-136319000	Weak transcription	Duodenum Mucosa	Duodenum
8	chr3:136251600-136322400	Weak transcription	Liver	Liver
9	chr3:136252600-136320400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr3:136252800-136305600	Weak transcription	Fetal Muscle Trunk	muscle
11	chr3:136252800-136314800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
12	chr3:136255200-136294000	Weak transcription	Primary T cells from cord blood	blood
13	chr3:136263000-136327200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr3:136265000-136294200	Weak transcription	Fetal Lung	lung
15	chr3:136265400-136314800	Weak transcription	Brain Hippocampus Middle	brain
16	chr3:136266400-136315600	Weak transcription	Primary T cells fromperipheralblood	blood
17	chr3:136266600-136314600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:136266600-136316200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr3:136266800-136314800	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr3:136267000-136297800	Weak transcription	HUVEC	blood vessel
21	chr3:136268200-136351200	Weak transcription	Esophagus	oesophagus
22	chr3:136269000-136303200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
23	chr3:136269600-136295800	Weak transcription	Fetal Heart	heart
24	chr3:136271200-136331400	Weak transcription	NHDF-Ad	bronchial
25	chr3:136272600-136335600	Weak transcription	Skeletal Muscle Female	skeletal muscle
26	chr3:136274200-136314000	Weak transcription	GM12878-XiMat	blood
27	chr3:136274800-136298000	Weak transcription	HSMM	muscle
28	chr3:136275200-136296400	Weak transcription	Pancreas	Pancrea
29	chr3:136276600-136303800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr3:136277200-136296200	Weak transcription	Psoas Muscle	Psoas
31	chr3:136277800-136315200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr3:136279800-136303200	Weak transcription	Ovary	ovary
33	chr3:136280000-136323000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr3:136283600-136295600	Weak transcription	A549	lung
35	chr3:136283600-136314600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
36	chr3:136283800-136341800	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr3:136284400-136337800	Weak transcription	Fetal Kidney	kidney
38	chr3:136285000-136307200	Weak transcription	Lung	lung
39	chr3:136285000-136314800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
40	chr3:136285200-136335400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr3:136285400-136313600	Weak transcription	Left Ventricle	heart
42	chr3:136285800-136303400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr3:136286400-136305200	Weak transcription	Fetal Thymus	thymus
44	chr3:136286600-136314600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
45	chr3:136286800-136307200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
46	chr3:136286800-136322600	Weak transcription	Placenta	Placenta
47	chr3:136286800-136343600	Weak transcription	Rectal Mucosa Donor 29	rectum
48	chr3:136287000-136295800	Weak transcription	Stomach Mucosa	stomach
49	chr3:136287000-136298000	Weak transcription	Dnd41	blood
50	chr3:136287200-136298000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links