Variant report

Variant	rs17055952
Chromosome Location	chr6:128848486-128848487
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	chr6:128848166..128851056-chr6:128858562..128860170,2	MCF-7	breast:

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:129)

rs_ID	r²[population]
rs10085245	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10085247	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10085248	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10223535	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10872331	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11154439	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11154440	1.00[ASN][1000 genomes]
rs11751628	1.00[ASN][1000 genomes]
rs11752256	1.00[ASN][1000 genomes]
rs11753496	1.00[ASN][1000 genomes]
rs11758545	1.00[ASN][1000 genomes]
rs11758690	1.00[ASN][1000 genomes]
rs11963575	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12524679	1.00[ASN][1000 genomes]
rs12525214	1.00[ASN][1000 genomes]
rs12526634	1.00[ASN][1000 genomes]
rs12526667	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12527086	1.00[ASN][1000 genomes]
rs12527265	1.00[ASN][1000 genomes]
rs12529229	1.00[ASN][1000 genomes]
rs12529511	1.00[ASN][1000 genomes]
rs12529947	1.00[ASN][1000 genomes]
rs12529948	1.00[ASN][1000 genomes]
rs13209380	0.82[EUR][1000 genomes]
rs1341584	1.00[ASN][1000 genomes]
rs1341585	1.00[ASN][1000 genomes]
rs13437323	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1361595	0.94[EUR][1000 genomes]
rs1572964	1.00[ASN][1000 genomes]
rs17056043	1.00[ASN][1000 genomes]
rs17364020	1.00[ASN][1000 genomes]
rs17364090	1.00[ASN][1000 genomes]
rs17364118	1.00[ASN][1000 genomes]
rs17364153	1.00[ASN][1000 genomes]
rs17461370	1.00[ASN][1000 genomes]
rs17461759	1.00[ASN][1000 genomes]
rs1935131	1.00[ASN][1000 genomes]
rs2326702	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55988836	1.00[ASN][1000 genomes]
rs57922933	1.00[ASN][1000 genomes]
rs62425737	1.00[ASN][1000 genomes]
rs62425738	1.00[ASN][1000 genomes]
rs62425739	1.00[ASN][1000 genomes]
rs62425740	1.00[ASN][1000 genomes]
rs62425742	1.00[ASN][1000 genomes]
rs62425743	1.00[ASN][1000 genomes]
rs62425744	1.00[ASN][1000 genomes]
rs62426790	1.00[ASN][1000 genomes]
rs62426791	1.00[ASN][1000 genomes]
rs62426792	1.00[ASN][1000 genomes]
rs62426793	1.00[ASN][1000 genomes]
rs62426794	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62426795	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62426796	1.00[ASN][1000 genomes]
rs62426797	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs62426798	1.00[ASN][1000 genomes]
rs62426799	1.00[ASN][1000 genomes]
rs62426800	1.00[ASN][1000 genomes]
rs62426801	1.00[ASN][1000 genomes]
rs62426804	1.00[ASN][1000 genomes]
rs62426805	1.00[ASN][1000 genomes]
rs62426806	1.00[ASN][1000 genomes]
rs62426840	1.00[ASN][1000 genomes]
rs62426841	1.00[ASN][1000 genomes]
rs62426842	1.00[ASN][1000 genomes]
rs62426844	1.00[ASN][1000 genomes]
rs62426846	1.00[ASN][1000 genomes]
rs62426847	1.00[ASN][1000 genomes]
rs62426848	1.00[ASN][1000 genomes]
rs62426849	1.00[ASN][1000 genomes]
rs62426850	1.00[ASN][1000 genomes]
rs62426851	1.00[ASN][1000 genomes]
rs62426853	1.00[ASN][1000 genomes]
rs62427780	1.00[ASN][1000 genomes]
rs62427781	1.00[ASN][1000 genomes]
rs6569529	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6569533	0.93[EUR][1000 genomes]
rs6916193	0.92[EUR][1000 genomes]
rs6920943	0.92[EUR][1000 genomes]
rs6923822	0.87[EUR][1000 genomes]
rs6924111	0.98[EUR][1000 genomes]
rs6935611	0.91[EUR][1000 genomes]
rs714782	1.00[ASN][1000 genomes]
rs7356818	1.00[ASN][1000 genomes]
rs7356912	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7454742	1.00[ASN][1000 genomes]
rs766306	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7738739	1.00[ASN][1000 genomes]
rs7739600	1.00[ASN][1000 genomes]
rs7745291	0.93[EUR][1000 genomes]
rs7748742	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751094	1.00[ASN][1000 genomes]
rs7752487	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7760287	1.00[ASN][1000 genomes]
rs7760330	0.89[EUR][1000 genomes]
rs7760572	1.00[ASN][1000 genomes]
rs7760682	1.00[ASN][1000 genomes]
rs7765212	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7768240	1.00[ASN][1000 genomes]
rs7771701	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9321122	1.00[ASN][1000 genomes]
rs9372894	0.92[EUR][1000 genomes]
rs9375575	0.93[EUR][1000 genomes]
rs9388651	0.92[EUR][1000 genomes]
rs9388652	0.85[EUR][1000 genomes]
rs9388654	0.92[EUR][1000 genomes]
rs947358	0.87[EUR][1000 genomes]
rs9482892	1.00[ASN][1000 genomes]
rs9482893	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9482897	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9482902	1.00[ASN][1000 genomes]
rs9482904	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9491988	1.00[ASN][1000 genomes]
rs9491990	0.98[EUR][1000 genomes]
rs9491997	0.92[EUR][1000 genomes]
rs9491999	0.92[EUR][1000 genomes]
rs9492000	1.00[ASN][1000 genomes]
rs9492001	0.92[EUR][1000 genomes]
rs9492002	1.00[ASN][1000 genomes]
rs9492004	1.00[ASN][1000 genomes]
rs9492005	1.00[ASN][1000 genomes]
rs9492008	1.00[ASN][1000 genomes]
rs9492011	1.00[ASN][1000 genomes]
rs9492013	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492014	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492017	1.00[ASN][1000 genomes]
rs9492018	1.00[ASN][1000 genomes]
rs9492020	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9492021	0.81[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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer 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	nsv1020071	chr6:128579774-129048919	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv538441	chr6:128579774-129048919	Flanking Active TSS Weak transcription Strong transcription Enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
5	nsv830800	chr6:128710631-128878435	Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128842600-128848800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:128842800-128853800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr6:128844000-128859200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr6:128846800-128848600	Weak transcription	HepG2	liver
5	chr6:128847400-128853200	Weak transcription	Fetal Brain Female	brain
6	chr6:128847800-128848800	Enhancers	ES-I3 Cell Line	embryonic stem cell
7	chr6:128848400-128850400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links