Variant report

Variant	rs1388606
Chromosome Location	chr3:46158434-46158435
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1388605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1388608	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1392288	0.90[CEU][hapmap]
rs1392293	0.85[EUR][1000 genomes]
rs1463680	0.83[CEU][hapmap]
rs1491949	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1546076	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1566419	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1809733	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1826342	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1873616	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2036293	0.83[EUR][1000 genomes]
rs2101446	0.82[EUR][1000 genomes]
rs2133666	0.86[EUR][1000 genomes]
rs2373148	0.95[CEU][hapmap];1.00[JPT][hapmap]
rs2373149	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2373152	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2373155	0.91[CEU][hapmap];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4321566	0.82[EUR][1000 genomes]
rs4383561	1.00[LWK][hapmap]
rs4490404	0.86[EUR][1000 genomes]
rs4493468	0.86[EUR][1000 genomes]
rs4682801	1.00[CEU][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs4682811	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683158	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs4683171	0.83[EUR][1000 genomes]
rs4683177	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683181	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4683182	0.82[AMR][1000 genomes]
rs6441934	1.00[LWK][hapmap]
rs6767559	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6786959	0.95[CEU][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes]
rs6802312	1.00[CEU][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs6807578	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6808712	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6809223	0.95[CEU][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7622333	0.95[CEU][hapmap];1.00[LWK][hapmap];0.83[MKK][hapmap];1.00[YRI][hapmap]
rs7634822	0.82[AMR][1000 genomes]
rs7638309	0.95[CEU][hapmap];1.00[JPT][hapmap];0.81[MEX][hapmap]
rs7653682	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs902760	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs904634	0.84[EUR][1000 genomes]
rs9311388	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9820016	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.91[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9875616	0.83[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46146800-46164400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:46148400-46160200	Enhancers	Primary monocytes fromperipheralblood	blood
3	chr3:46149200-46158800	Enhancers	NHLF	lung
4	chr3:46149200-46159800	Enhancers	Placenta	Placenta
5	chr3:46150400-46158800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr3:46150600-46158600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
7	chr3:46151000-46158800	Weak transcription	Stomach Mucosa	stomach
8	chr3:46152600-46165200	Weak transcription	Spleen	Spleen
9	chr3:46152800-46158800	Enhancers	Hela-S3	cervix
10	chr3:46152800-46159400	Weak transcription	Lung	lung
11	chr3:46152800-46162400	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr3:46156000-46159000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
13	chr3:46156400-46159600	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr3:46156800-46168000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
15	chr3:46157000-46159400	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr3:46157200-46159400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr3:46157200-46166600	Weak transcription	Psoas Muscle	Psoas
18	chr3:46157200-46168600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr3:46157400-46159800	Enhancers	Monocytes-CD14+_RO01746	blood
20	chr3:46157800-46158800	Enhancers	NHEK	skin
21	chr3:46158000-46158800	Enhancers	HMEC	breast
22	chr3:46158000-46163200	Weak transcription	Fetal Stomach	stomach
23	chr3:46158200-46159600	Enhancers	Adipose Nuclei	Adipose
24	chr3:46158200-46162400	Weak transcription	NHDF-Ad	bronchial
25	chr3:46158200-46162800	Weak transcription	Fetal Lung	lung
26	chr3:46158400-46158600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
27	chr3:46158400-46159000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links