Variant report

Variant	rs2408272
Chromosome Location	chr12:45896919-45896920
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:45891586..45893830-chr12:45896863..45899327,2	MCF-7	breast:

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:69)

rs_ID	r²[population]
rs10736027	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10748424	0.92[CEU][hapmap];0.93[EUR][1000 genomes]
rs10748425	0.94[EUR][1000 genomes]
rs10785574	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10785575	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10785576	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10785578	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10880791	0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10880792	0.93[EUR][1000 genomes]
rs10880794	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10880798	0.82[ASN][1000 genomes]
rs10880800	0.96[ASN][1000 genomes]
rs10880803	0.96[ASN][1000 genomes]
rs10880804	0.96[ASN][1000 genomes]
rs10880805	0.92[ASN][1000 genomes]
rs10880806	0.90[ASN][1000 genomes]
rs10880807	0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11183062	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11183064	0.94[EUR][1000 genomes]
rs11183067	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11183068	0.85[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11183069	0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs11183072	0.97[ASN][1000 genomes]
rs11183077	0.97[ASN][1000 genomes]
rs11183078	0.97[ASN][1000 genomes]
rs11183079	0.97[ASN][1000 genomes]
rs12231165	0.84[ASN][1000 genomes]
rs12298570	0.97[ASN][1000 genomes]
rs12303053	0.96[ASN][1000 genomes]
rs12303449	0.90[ASN][1000 genomes]
rs12316574	0.97[ASN][1000 genomes]
rs12317115	0.97[ASN][1000 genomes]
rs12320604	0.97[ASN][1000 genomes]
rs12321802	0.96[ASN][1000 genomes]
rs12830362	0.90[ASN][1000 genomes]
rs17096009	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2408253	0.94[EUR][1000 genomes]
rs2408254	0.94[EUR][1000 genomes]
rs2408255	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2408256	1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2408318	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2408323	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2408325	0.93[EUR][1000 genomes]
rs2897889	0.93[EUR][1000 genomes]
rs2897905	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2897907	0.93[EUR][1000 genomes]
rs33971594	0.90[ASN][1000 genomes]
rs34265125	0.96[ASN][1000 genomes]
rs34865395	0.90[ASN][1000 genomes]
rs35296382	0.81[ASN][1000 genomes]
rs4567534	0.90[ASN][1000 genomes]
rs4570651	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4590938	0.90[ASN][1000 genomes]
rs4768090	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4768091	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4768620	0.98[EUR][1000 genomes]
rs4768623	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5001653	0.90[ASN][1000 genomes]
rs5003954	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56217910	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6582553	0.90[EUR][1000 genomes]
rs7133173	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7302122	0.92[EUR][1000 genomes]
rs7311901	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7316226	0.94[EUR][1000 genomes]
rs73285289	0.96[ASN][1000 genomes]
rs7484690	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7486952	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7968560	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[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	nsv832395	chr12:45841765-46039297	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv508672	chr12:45884730-45931091	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	esv1812235	chr12:45892993-45909531	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv1791767	chr12:45892993-45912862	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv691	chr12:45896295-45946455	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45892200-45901600	Weak transcription	Pancreas	Pancrea
2	chr12:45896800-45901600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links