Variant report

Variant	rs1197287
Chromosome Location	chr3:133091911-133091912
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:46)

rs_ID	r²[population]
rs1114630	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1197288	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1197289	0.82[JPT][hapmap]
rs1197293	0.82[CHB][hapmap];0.83[JPT][hapmap];0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs1197296	0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1197297	0.87[CHB][hapmap];0.96[JPT][hapmap];0.87[ASN][1000 genomes]
rs1197298	0.91[CHB][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs1197299	0.95[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs1197301	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs1197302	0.91[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs1197304	0.95[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1197305	0.95[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1197306	0.91[CHB][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs1197309	0.91[CHB][hapmap];0.91[JPT][hapmap];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1197313	0.95[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1197314	0.86[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs1201671	0.91[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1201673	0.86[CHB][hapmap];0.95[JPT][hapmap];0.88[ASN][1000 genomes]
rs12631678	0.87[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs1619552	0.91[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs1619622	0.91[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs1708376	0.85[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1708377	0.91[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs1708384	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1708385	0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs1795104	0.87[ASN][1000 genomes]
rs1795107	0.91[CHB][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs2089987	0.87[CHB][hapmap];0.96[JPT][hapmap];0.84[ASN][1000 genomes]
rs2670179	0.91[CHB][hapmap];0.91[JPT][hapmap];0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs2699880	0.87[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs2699882	0.91[CHB][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs3732572	0.82[CHB][hapmap];0.95[JPT][hapmap];0.85[ASN][1000 genomes]
rs4854583	0.84[ASN][1000 genomes]
rs4854719	0.95[CHB][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4854720	0.87[CHB][hapmap];0.96[JPT][hapmap];0.84[ASN][1000 genomes]
rs56181416	0.82[ASN][1000 genomes]
rs656721	0.86[JPT][hapmap]
rs6780144	0.87[ASN][1000 genomes]
rs6802663	0.83[CHB][hapmap];0.96[JPT][hapmap];0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs869751	0.82[JPT][hapmap]
rs938229	0.81[CHB][hapmap];0.82[JPT][hapmap];0.80[ASN][1000 genomes]
rs938230	0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs938231	0.86[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9850193	0.87[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs9853752	0.91[ASN][1000 genomes]
rs9853757	0.91[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877503	chr3:133035774-133104631	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133080800-133098600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr3:133083200-133099200	Weak transcription	Lung	lung
3	chr3:133088000-133093800	Weak transcription	HSMMtube	muscle
4	chr3:133089200-133094800	Weak transcription	Fetal Lung	lung
5	chr3:133089600-133093800	Weak transcription	Brain Substantia Nigra	brain
6	chr3:133089800-133092600	Weak transcription	Brain Germinal Matrix	brain
7	chr3:133089800-133093800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr3:133090000-133092600	Weak transcription	Fetal Brain Male	brain
9	chr3:133090200-133093800	Weak transcription	Brain Hippocampus Middle	brain
10	chr3:133090200-133093800	Weak transcription	Fetal Brain Female	brain
11	chr3:133090400-133092800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:133090400-133093000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
13	chr3:133090800-133093800	Weak transcription	Brain Cingulate Gyrus	brain
14	chr3:133091600-133092400	Weak transcription	Cortex derived primary cultured neurospheres	brain
15	chr3:133091600-133093600	Weak transcription	Brain Angular Gyrus	brain
16	chr3:133091600-133093600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
17	chr3:133091800-133093800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr3:133091800-133094000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

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