Variant report

Variant	rs1457659
Chromosome Location	chr3:78784269-78784270
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs10049014	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[JPT][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10049102	0.95[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10428105	0.90[CEU][hapmap];0.87[JPT][hapmap]
rs11914618	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs11919682	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs11920344	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs11925970	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs11928868	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs1395784	0.94[CEU][hapmap];0.80[CHB][hapmap];0.81[JPT][hapmap]
rs17016466	0.90[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap]
rs17375110	0.90[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.83[JPT][hapmap]
rs17375496	0.90[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap]
rs17375739	0.90[CEU][hapmap];0.81[CHB][hapmap];0.85[CHD][hapmap];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1865860	0.85[CEU][hapmap];0.83[JPT][hapmap]
rs1865861	0.80[CEU][hapmap];0.80[CHB][hapmap];0.89[JPT][hapmap];0.83[MEX][hapmap];0.80[TSI][hapmap];0.82[EUR][1000 genomes]
rs1865863	0.81[CEU][hapmap];0.88[JPT][hapmap];0.82[EUR][1000 genomes]
rs1961636	0.82[EUR][1000 genomes]
rs2271151	0.90[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap]
rs28494803	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3732663	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs3773226	0.90[CEU][hapmap];0.81[CHB][hapmap];0.83[JPT][hapmap]
rs3773231	0.89[CEU][hapmap];0.88[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3773234	0.90[CEU][hapmap];0.87[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3773239	0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3773240	0.90[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3773245	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3821601	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs3821602	0.86[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3821603	0.90[CEU][hapmap];0.87[CHB][hapmap];0.92[CHD][hapmap];1.00[JPT][hapmap];0.85[TSI][hapmap];0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4263256	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs58423115	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61053911	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6769933	0.89[CEU][hapmap]
rs6787349	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[CHD][hapmap];0.84[JPT][hapmap];0.83[TSI][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6788434	0.90[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap]
rs6788511	1.00[CEU][hapmap];0.81[CHB][hapmap];0.88[CHD][hapmap];0.84[JPT][hapmap]
rs73109772	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73109774	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7610686	0.90[CEU][hapmap];0.85[CHD][hapmap];0.84[JPT][hapmap]
rs7613490	0.90[CEU][hapmap];0.81[CHD][hapmap]
rs7616495	0.90[CEU][hapmap];0.81[CHB][hapmap];0.83[JPT][hapmap]
rs7622194	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs7624482	1.00[CEU][hapmap];0.83[JPT][hapmap]
rs7653782	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs767182	0.90[CEU][hapmap];0.81[CHB][hapmap];0.85[CHD][hapmap];0.84[JPT][hapmap]
rs9808950	1.00[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap];0.80[EUR][1000 genomes]
rs9819398	1.00[CEU][hapmap];0.85[CHB][hapmap];0.83[JPT][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9823359	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs9840033	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9866912	0.80[CEU][hapmap];0.94[JPT][hapmap];0.84[EUR][1000 genomes]
rs9880072	0.90[CEU][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap]
rs9880316	1.00[CEU][hapmap];0.81[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap];0.80[TSI][hapmap]
rs9882811	0.90[CEU][hapmap];0.81[CHB][hapmap];0.83[JPT][hapmap]
rs997274	0.90[CEU][hapmap];0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2753211	chr3:78784269-78809116	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78772000-78792200	Weak transcription	HepG2	liver
2	chr3:78778800-78785600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:78778800-78787200	Weak transcription	HSMM	muscle
4	chr3:78780000-78787000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr3:78780600-78785600	Weak transcription	NHDF-Ad	bronchial
6	chr3:78782200-78787000	Weak transcription	Brain Germinal Matrix	brain
7	chr3:78783200-78797000	Weak transcription	Fetal Lung	lung
8	chr3:78783400-78785600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr3:78783400-78786400	Weak transcription	Osteobl	bone
10	chr3:78783600-78785400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:78783600-78785600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
12	chr3:78783600-78785600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
13	chr3:78783600-78786200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
14	chr3:78783600-78787000	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr3:78783600-78787000	Weak transcription	HUES64 Cell Line	embryonic stem cell
16	chr3:78783600-78787200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr3:78783600-78787200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr3:78783600-78787200	Weak transcription	HUES6 Cell Line	embryonic stem cell
19	chr3:78783600-78787200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr3:78783600-78787200	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr3:78783600-78787400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
22	chr3:78783800-78787200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
23	chr3:78783800-78803400	Weak transcription	Fetal Muscle Leg	muscle
24	chr3:78784200-78787000	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links