Variant report

Variant	rs59203807
Chromosome Location	chr6:109926690-109926691
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	chr6:109926146..109927722-chr6:109932421..109934095,2	MCF-7	breast:

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs1321329	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1406898	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1535419	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1535420	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1570391	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17070632	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs17070657	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17070666	0.95[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17070692	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17070701	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17070705	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17070733	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17070737	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17070740	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17070743	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17070774	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17070803	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17070833	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17070875	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17070915	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17070921	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17070937	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2273896	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3778479	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3799844	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3799848	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3799850	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3823233	0.84[ASN][1000 genomes]
rs41439948	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4454171	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57181024	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57996937	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58273806	0.84[AFR][1000 genomes];0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs58630019	0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs58731181	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs59626863	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60108304	1.00[AFR][1000 genomes];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60927725	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61374793	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61522207	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61671496	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905490	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73520933	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9487130	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9487131	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9487143	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9791294	0.91[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]

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	nsv1026012	chr6:109851638-109999379	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv604484	chr6:109851937-109997529	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1019389	chr6:109868058-109987502	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv538416	chr6:109868058-109987502	Genic enhancers ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv917318	chr6:109885195-109982375	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109923600-109932000	Weak transcription	Spleen	Spleen
2	chr6:109923600-109952600	Weak transcription	Right Ventricle	heart
3	chr6:109925200-109932000	Weak transcription	Psoas Muscle	Psoas
4	chr6:109925200-109932600	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr6:109925400-109926800	Weak transcription	Aorta	Aorta
6	chr6:109925400-109927600	Weak transcription	Lung	lung
7	chr6:109925400-109927600	Weak transcription	Pancreas	Pancrea
8	chr6:109925400-109932600	Weak transcription	Brain Angular Gyrus	brain
9	chr6:109925400-109932600	Weak transcription	Duodenum Smooth Muscle	Duodenum
10	chr6:109925600-109932600	Weak transcription	Skeletal Muscle Female	skeletal muscle
11	chr6:109925600-109933000	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr6:109925800-109930600	Weak transcription	Primary B cells from cord blood	blood
13	chr6:109926000-109932600	Weak transcription	Brain Anterior Caudate	brain
14	chr6:109926000-109932600	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:109926200-109929400	Enhancers	Primary T cells from cord blood	blood
16	chr6:109926200-109932600	Weak transcription	Stomach Smooth Muscle	stomach
17	chr6:109926400-109928000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
18	chr6:109926400-109932200	Weak transcription	Brain Hippocampus Middle	brain
19	chr6:109926400-109932400	Weak transcription	Adipose Nuclei	Adipose
20	chr6:109926400-109934200	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr6:109926600-109928000	Enhancers	Thymus	Thymus
22	chr6:109926600-109928200	Enhancers	Fetal Thymus	thymus
23	chr6:109926600-109932600	Weak transcription	Primary B cells from peripheral blood	blood
24	chr6:109926600-109932600	Weak transcription	Liver	Liver
25	chr6:109926600-109934400	Weak transcription	Brain Substantia Nigra	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links