Variant report

Variant	rs35404142
Chromosome Location	chr10:38104125-38104126
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:38102329..38104964-chr10:38116969..38118969,2	MCF-7	breast:

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs10827821	0.88[AFR][1000 genomes]
rs10827830	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10827834	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs10827837	1.00[EUR][1000 genomes]
rs10827838	1.00[EUR][1000 genomes]
rs11011332	0.88[AFR][1000 genomes]
rs11011356	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011357	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11011358	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11011364	1.00[EUR][1000 genomes]
rs11011368	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11011375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11011376	1.00[EUR][1000 genomes]
rs11011385	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11011391	0.94[AFR][1000 genomes]
rs11011393	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11011403	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11011412	1.00[EUR][1000 genomes]
rs11011415	1.00[EUR][1000 genomes]
rs11498323	0.85[AMR][1000 genomes]
rs11812927	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11813932	1.00[EUR][1000 genomes]
rs11814622	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11815775	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs11816307	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11816995	1.00[AFR][1000 genomes]
rs11817696	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11818933	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11819551	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12240311	1.00[EUR][1000 genomes]
rs12241614	1.00[EUR][1000 genomes]
rs12242131	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12244864	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12248857	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12250012	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12250395	1.00[EUR][1000 genomes]
rs12250465	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12251570	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12252091	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12252754	1.00[EUR][1000 genomes]
rs12256181	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12256794	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12257632	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12257902	1.00[EUR][1000 genomes]
rs12258024	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12258128	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12258252	1.00[EUR][1000 genomes]
rs12260189	1.00[EUR][1000 genomes]
rs12260310	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12262559	1.00[EUR][1000 genomes]
rs12262814	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12262927	1.00[EUR][1000 genomes]
rs12267847	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12267923	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12268435	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12269398	1.00[EUR][1000 genomes]
rs12761218	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs12770231	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12773340	1.00[EUR][1000 genomes]
rs12777107	1.00[EUR][1000 genomes]
rs12778900	1.00[EUR][1000 genomes]
rs12779056	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs12783599	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34079297	1.00[AMR][1000 genomes]
rs34152840	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34222428	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34445730	1.00[EUR][1000 genomes]
rs34591573	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34724357	1.00[EUR][1000 genomes]
rs34918037	1.00[EUR][1000 genomes]
rs34964888	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35006520	1.00[EUR][1000 genomes]
rs35047448	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs35056062	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35246660	1.00[EUR][1000 genomes]
rs35384774	0.81[AFR][1000 genomes]
rs35818588	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs36188980	0.85[AMR][1000 genomes]
rs57753536	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs60538050	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs71489160	0.88[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs71491203	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491210	1.00[EUR][1000 genomes]
rs71491212	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs71491214	0.82[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs71491223	1.00[EUR][1000 genomes]
rs71491227	1.00[EUR][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	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv982874	chr10:38092839-38111415	ZNF genes & repeats Weak transcription Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38092600-38105000	Weak transcription	Pancreas	Pancrea
2	chr10:38103000-38109200	Weak transcription	Skeletal Muscle Female	skeletal muscle
3	chr10:38103800-38118000	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links