Variant report

Variant	rs2868438
Chromosome Location	chr3:146141603-146141604
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:146139609..146141816-chr3:146146728..146148840,3	MCF-7	breast:

Extended variants
information (count: 131 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs10804713	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10804714	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10935626	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10935631	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10935632	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11720256	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12053987	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12054302	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12054308	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12054453	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12054455	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12107218	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12486656	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12486737	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12487546	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12487572	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12492503	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12494007	0.91[CEU][hapmap];1.00[CHB][hapmap]
rs12494206	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12497907	0.83[EUR][1000 genomes]
rs12629356	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12629420	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12633694	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[ASN][1000 genomes]
rs13064298	0.83[EUR][1000 genomes]
rs13068178	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13068800	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13081634	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs13088225	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.84[MKK][hapmap];0.97[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13090489	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13092702	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1403640	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1403641	1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1403642	1.00[CHB][hapmap];0.84[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1403643	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1403644	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1403645	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1523334	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1523335	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[GIH][hapmap];0.95[TSI][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1523336	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1608389	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1608390	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1608391	0.88[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[GIH][hapmap];0.95[TSI][hapmap]
rs1608392	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17351881	0.84[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2037565	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2091064	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2222465	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2222466	0.88[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2868436	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs34198003	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34359311	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34535967	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs34696856	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34740686	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35082616	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs35223042	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35336826	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35374128	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35695439	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4234358	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4282029	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4333063	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4334615	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4355250	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4380387	0.88[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4389447	0.83[EUR][1000 genomes]
rs4444684	0.88[CEU][hapmap];1.00[CHB][hapmap];0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4476473	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4558726	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4569626	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4572737	0.89[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.84[LWK][hapmap];1.00[MEX][hapmap];0.97[MKK][hapmap];1.00[TSI][hapmap];0.90[YRI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4597678	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4600794	1.00[CHB][hapmap];0.97[CHD][hapmap];0.83[ASN][1000 genomes]
rs4681119	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap]
rs4681120	0.92[CEU][hapmap];1.00[CHB][hapmap]
rs4681318	0.84[EUR][1000 genomes]
rs4681319	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4681320	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4681321	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4681322	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4681326	1.00[CHB][hapmap];0.94[JPT][hapmap];0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs473517	0.96[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs506791	0.95[CHB][hapmap];0.88[JPT][hapmap];0.90[ASN][1000 genomes]
rs509382	0.83[ASN][1000 genomes]
rs533756	0.95[ASN][1000 genomes]
rs535344	0.95[ASN][1000 genomes]
rs544043	0.83[ASN][1000 genomes]
rs544979	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs570781	0.95[ASN][1000 genomes]
rs574318	0.95[ASN][1000 genomes]
rs57545585	0.86[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58445343	0.82[EUR][1000 genomes]
rs6440429	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6440430	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6440432	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6440435	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6766583	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6766800	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs6767156	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6770000	0.84[EUR][1000 genomes]
rs6774338	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6794891	0.84[EUR][1000 genomes]
rs6794893	0.83[EUR][1000 genomes]
rs6798352	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6801846	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6801964	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6806369	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6806535	0.88[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.83[GIH][hapmap];0.95[TSI][hapmap]
rs692749	0.83[ASN][1000 genomes]
rs7431927	0.84[EUR][1000 genomes]
rs7434147	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7434212	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7614557	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7617214	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.95[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7619521	0.84[EUR][1000 genomes]
rs7620107	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7628445	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7633474	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7645939	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7646988	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7650361	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7650546	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7653701	0.96[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.95[MEX][hapmap];0.85[MKK][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs940193	0.88[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs955611	0.96[CEU][hapmap];1.00[CHB][hapmap];0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877617	chr3:146096182-146172109	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv877618	chr3:146096182-146192324	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv877619	chr3:146106142-146172109	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
4	nsv877620	chr3:146109354-146172109	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
5	nsv877621	chr3:146117041-146172109	Enhancers Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
6	nsv877622	chr3:146131961-146219740	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island 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	chr3:146130400-146142800	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr3:146135600-146160400	Weak transcription	Pancreas	Pancrea

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links