Variant report

Variant	rs13079457
Chromosome Location	chr3:134573484-134573485
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs11706968	0.90[CHB][hapmap];0.82[YRI][hapmap]
rs11928990	0.89[CHB][hapmap]
rs12489463	0.81[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs12496060	0.88[CHB][hapmap]
rs13072597	0.87[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.87[JPT][hapmap];0.93[MEX][hapmap];0.92[TSI][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13072762	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13073658	0.89[CHB][hapmap];0.92[LWK][hapmap];0.86[MEX][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs13078595	0.81[JPT][hapmap]
rs13090529	0.89[CHB][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs13090749	0.89[CHB][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs13090758	0.89[CHB][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs13091440	0.89[CHB][hapmap];0.92[LWK][hapmap];0.86[MEX][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes]
rs1399707	0.90[CHB][hapmap]
rs1399710	0.84[YRI][hapmap]
rs1515367	0.90[CHB][hapmap];0.81[JPT][hapmap];0.82[YRI][hapmap]
rs1949305	0.89[CHB][hapmap]
rs2280156	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2292659	0.89[CHB][hapmap]
rs2292660	0.89[CHB][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes]
rs34287501	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34640730	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34894066	0.82[AFR][1000 genomes]
rs3732569	0.89[CHB][hapmap]
rs60531499	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6439529	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6762261	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.95[GIH][hapmap];0.87[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6782516	0.89[CHB][hapmap]
rs6785725	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6789763	0.90[CHB][hapmap];0.81[JPT][hapmap]
rs6793813	0.87[CEU][hapmap];0.90[CHB][hapmap];0.93[CHD][hapmap];0.87[JPT][hapmap];0.93[MEX][hapmap];0.92[TSI][hapmap];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6797336	0.82[AFR][1000 genomes]
rs6797353	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9874291	0.81[JPT][hapmap]

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	nsv877515	chr3:134460368-134591138	Enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1009634	chr3:134543259-134820208	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv536720	chr3:134543259-134820208	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1000277	chr3:134546080-134970837	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134567200-134576000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr3:134569200-134573800	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:134569600-134574200	Enhancers	Fetal Brain Female	brain
4	chr3:134570000-134582800	Weak transcription	Psoas Muscle	Psoas
5	chr3:134570400-134574400	Weak transcription	Rectal Smooth Muscle	rectum
6	chr3:134571600-134581400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
7	chr3:134571800-134574200	Weak transcription	Spleen	Spleen
8	chr3:134571800-134575800	Weak transcription	Fetal Brain Male	brain
9	chr3:134572200-134574800	Weak transcription	Skeletal Muscle Female	skeletal muscle
10	chr3:134572600-134573600	Enhancers	Monocytes-CD14+_RO01746	blood
11	chr3:134572800-134573600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr3:134572800-134573600	Enhancers	GM12878-XiMat	blood
13	chr3:134573000-134573600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr3:134573000-134573800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr3:134573200-134573600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr3:134573400-134573600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr3:134573400-134576400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links