Variant report

Variant	rs12727032
Chromosome Location	chr1:196552103-196552104
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10494743	0.92[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap]
rs10754187	0.85[JPT][hapmap]
rs10754188	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs10754195	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10754196	0.82[CHB][hapmap];0.89[JPT][hapmap];0.87[ASN][1000 genomes]
rs10754198	0.89[ASN][1000 genomes]
rs10801531	0.85[JPT][hapmap]
rs10801532	0.82[JPT][hapmap]
rs10801533	0.83[CEU][hapmap];0.89[JPT][hapmap]
rs10801537	0.90[JPT][hapmap]
rs10801538	0.92[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap]
rs10801550	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10922073	0.96[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap]
rs10922075	0.90[JPT][hapmap]
rs10922082	0.89[JPT][hapmap]
rs10922083	0.89[JPT][hapmap]
rs10922084	0.90[JPT][hapmap]
rs10922088	0.87[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs11807331	0.85[JPT][hapmap]
rs12034150	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][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]
rs12049567	0.90[JPT][hapmap]
rs12065463	0.89[JPT][hapmap]
rs12069983	0.83[JPT][hapmap]
rs12069990	0.83[JPT][hapmap]
rs12562176	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs1416962	0.86[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap]
rs1538686	0.89[JPT][hapmap]
rs1538687	0.83[JPT][hapmap]
rs16840224	0.82[CHB][hapmap];0.89[JPT][hapmap];0.89[ASN][1000 genomes]
rs1769996	0.85[JPT][hapmap]
rs1832617	0.81[EUR][1000 genomes]
rs2878557	0.83[JPT][hapmap]
rs2878559	0.84[CEU][hapmap];0.90[JPT][hapmap]
rs3855964	0.83[JPT][hapmap]
rs3927686	0.83[JPT][hapmap]
rs3928857	0.83[JPT][hapmap]
rs4425932	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4462080	1.00[CHB][hapmap];0.95[JPT][hapmap];0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4618911	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs4658039	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs61819890	0.87[ASN][1000 genomes]
rs6428349	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6696801	0.91[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs7515074	0.90[JPT][hapmap]
rs7531611	0.83[JPT][hapmap]
rs7535696	0.83[JPT][hapmap]
rs7548553	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs869257	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs9427622	0.89[JPT][hapmap]
rs946750	0.83[JPT][hapmap]
rs946755	1.00[CEU][hapmap];0.96[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.82[EUR][1000 genomes]
rs9659527	0.88[CEU][hapmap];0.90[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	nsv931415	chr1:196270759-196744780	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1009233	chr1:196301712-196568874	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
3	nsv528460	chr1:196542567-197446702	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	26 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:196527800-196559400	Weak transcription	Ovary	ovary
2	chr1:196541600-196553200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr1:196547800-196556200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr1:196547800-196559000	Weak transcription	Liver	Liver
5	chr1:196548200-196557400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr1:196548400-196557600	Weak transcription	iPS-18 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links