Variant report

Variant	rs4336310
Chromosome Location	chr5:54098461-54098462
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	chr5:54098223..54100100-chr5:54101975..54104817,2	MCF-7	breast:

Extended variants
information (count: 127 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:123)

rs_ID	r²[population]
rs10036257	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10036606	0.97[ASN][1000 genomes]
rs10039924	0.92[ASN][1000 genomes]
rs10042288	0.97[ASN][1000 genomes]
rs10042394	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10042495	0.97[ASN][1000 genomes]
rs10043408	0.88[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs10044938	0.89[AFR][1000 genomes]
rs10045175	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10045765	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10045790	0.92[ASN][1000 genomes]
rs10050561	0.90[ASN][1000 genomes]
rs10053168	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10057871	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10058571	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10058862	0.97[ASN][1000 genomes]
rs10058905	0.84[AFR][1000 genomes]
rs10061958	0.85[ASN][1000 genomes]
rs10066294	0.96[ASN][1000 genomes]
rs10066622	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10066683	0.85[AFR][1000 genomes]
rs10068073	0.90[ASN][1000 genomes]
rs10071183	0.92[ASN][1000 genomes]
rs10073662	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10073721	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10073837	0.81[ASN][1000 genomes]
rs10434559	0.90[ASN][1000 genomes]
rs10461588	1.00[ASN][1000 genomes]
rs10471923	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1073709	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10737956	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs10805463	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10805468	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10805469	0.96[ASN][1000 genomes]
rs10940427	0.91[ASN][1000 genomes]
rs10940428	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11950757	0.89[ASN][1000 genomes]
rs11952681	0.93[ASN][1000 genomes]
rs11959080	0.90[ASN][1000 genomes]
rs12514244	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12515327	0.96[ASN][1000 genomes]
rs12520494	0.93[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs12522199	0.93[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13155441	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13161386	0.93[ASN][1000 genomes]
rs13161718	0.93[ASN][1000 genomes]
rs13167527	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13171964	0.93[ASN][1000 genomes]
rs13173669	0.97[ASN][1000 genomes]
rs13180287	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13186455	0.89[AFR][1000 genomes];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13186826	0.97[ASN][1000 genomes]
rs1867685	0.81[ASN][1000 genomes]
rs35922886	0.90[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs4074332	0.83[EUR][1000 genomes]
rs4242044	0.92[ASN][1000 genomes]
rs4242045	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4242046	0.96[ASN][1000 genomes]
rs4242047	0.96[ASN][1000 genomes]
rs4242048	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4282277	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4289528	0.96[ASN][1000 genomes]
rs4290968	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4292417	0.84[ASN][1000 genomes]
rs4298212	0.90[ASN][1000 genomes]
rs4320207	0.87[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4336311	0.93[ASN][1000 genomes]
rs4356994	0.92[ASN][1000 genomes]
rs4362906	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4437335	0.93[ASN][1000 genomes]
rs4451013	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4451014	0.93[ASN][1000 genomes]
rs4457032	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4464652	0.81[AFR][1000 genomes]
rs4498213	0.90[ASN][1000 genomes]
rs4505913	0.85[ASN][1000 genomes]
rs4515247	0.82[ASN][1000 genomes]
rs4519880	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4527555	0.97[ASN][1000 genomes]
rs4527556	0.97[ASN][1000 genomes]
rs4582235	0.93[ASN][1000 genomes]
rs4591702	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4610422	0.98[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4645296	0.90[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs4865587	0.81[EUR][1000 genomes]
rs4865870	0.90[ASN][1000 genomes]
rs4865872	0.92[ASN][1000 genomes]
rs4865873	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4865874	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4865875	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4865876	0.92[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs4865877	0.93[ASN][1000 genomes]
rs59664922	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60548640	0.82[ASN][1000 genomes]
rs62355005	0.81[AFR][1000 genomes]
rs6450247	0.81[ASN][1000 genomes]
rs6450248	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6450251	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6450252	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6450253	0.97[ASN][1000 genomes]
rs6860729	0.90[ASN][1000 genomes]
rs6863705	0.82[ASN][1000 genomes]
rs6867867	0.92[ASN][1000 genomes]
rs6887578	0.93[ASN][1000 genomes]
rs6891667	0.83[EUR][1000 genomes]
rs6892315	0.92[ASN][1000 genomes]
rs6899052	1.00[ASN][1000 genomes]
rs73126822	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73126828	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73126830	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7446423	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7446869	0.93[ASN][1000 genomes]
rs7448996	0.83[EUR][1000 genomes]
rs7709225	0.82[ASN][1000 genomes]
rs7709401	0.82[ASN][1000 genomes]
rs7726707	0.85[ASN][1000 genomes]
rs7728303	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7731103	0.94[ASN][1000 genomes]
rs9292072	0.85[ASN][1000 genomes]
rs9292073	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9292074	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9687636	0.97[ASN][1000 genomes]
rs9968754	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv880717	chr5:54025701-54106378	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv830300	chr5:54056300-54257344	Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv3358092	chr5:54077828-54189150	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2754136	chr5:54083387-54107727	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:54087600-54103600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr5:54091000-54103600	Weak transcription	Aorta	Aorta
3	chr5:54097000-54098600	Weak transcription	NHDF-Ad	bronchial
4	chr5:54098400-54100600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links