Variant report

Variant	rs1347345
Chromosome Location	chr4:95938386-95938387
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10018945	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10023544	0.85[ASN][1000 genomes]
rs11097457	0.87[MEX][hapmap];0.85[TSI][hapmap]
rs12500473	0.94[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs12512478	0.99[ASN][1000 genomes]
rs12644723	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12647875	0.97[ASN][1000 genomes]
rs13102404	0.99[ASN][1000 genomes]
rs13103406	0.82[CEU][hapmap];0.83[JPT][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13103870	0.85[CEU][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs13104170	0.98[ASN][1000 genomes]
rs13111378	0.87[CEU][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs13127255	0.81[EUR][1000 genomes]
rs13128282	0.84[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs13146146	0.84[EUR][1000 genomes]
rs13152791	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1348605	0.98[ASN][1000 genomes]
rs1434545	0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs1444922	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17344975	0.91[ASW][hapmap];0.84[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17403454	0.91[ASW][hapmap];0.84[CEU][hapmap];0.87[MEX][hapmap];0.90[TSI][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17404327	0.84[CEU][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17411701	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17411860	0.91[ASW][hapmap];0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.84[EUR][1000 genomes]
rs1970801	0.87[MEX][hapmap];0.85[TSI][hapmap]
rs2114534	0.87[CHD][hapmap]
rs28663472	0.92[ASN][1000 genomes]
rs34484245	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs34745188	0.83[EUR][1000 genomes]
rs34755714	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35653658	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35697886	0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs35888953	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs35966830	0.85[EUR][1000 genomes]
rs3775031	0.94[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap]
rs3796439	0.91[MEX][hapmap];0.88[TSI][hapmap]
rs3821964	0.95[MEX][hapmap];0.88[TSI][hapmap]
rs4145994	0.84[CEU][hapmap];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4699831	0.91[ASW][hapmap];0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.83[EUR][1000 genomes]
rs62316229	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62316236	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62316238	0.82[EUR][1000 genomes]
rs62316240	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6532526	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6532527	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.97[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6815044	0.94[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6815593	0.91[ASW][hapmap];0.84[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6815752	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6829326	0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6831094	0.94[ASN][1000 genomes]
rs6832300	0.94[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs6854585	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6855319	0.84[EUR][1000 genomes]
rs716191	0.97[ASN][1000 genomes]
rs7377902	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7662504	0.94[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap];0.99[ASN][1000 genomes]
rs7679627	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs7681920	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7682651	0.80[CEU][hapmap];0.91[MEX][hapmap];0.87[TSI][hapmap];0.81[EUR][1000 genomes]
rs7694043	0.80[CEU][hapmap];0.91[MEX][hapmap];0.90[TSI][hapmap];0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7698733	0.86[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv932216	chr4:95501261-96109807	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv1003860	chr4:95507683-96120619	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv869528	chr4:95537649-96368018	Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv492312	chr4:95823124-96128327	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
5	nsv879622	chr4:95917980-95984379	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:95935800-95938800	Enhancers	Fetal Thymus	thymus
2	chr4:95936000-95940000	Weak transcription	Aorta	Aorta
3	chr4:95936200-95939400	Enhancers	A549	lung
4	chr4:95937800-95938800	Enhancers	Thymus	Thymus
5	chr4:95938000-95938600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr4:95938000-95938800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr4:95938000-95940000	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr4:95938000-95940200	Enhancers	Dnd41	blood
9	chr4:95938200-95938600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
10	chr4:95938200-95939200	Enhancers	Primary T cells from cord blood	blood
11	chr4:95938200-95941000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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