Variant report

Variant	rs58350275
Chromosome Location	chr3:161041703-161041704
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:160987740..160990491-chr3:161040751..161042747,3	MCF-7	breast:
2	chr3:161038392..161046344-chr3:161085640..161093564,25	MCF-7	breast:
3	chr3:161040142..161042354-chr3:161082440..161084651,2	MCF-7	breast:
4	chr3:160942925..160944989-chr3:161039772..161043116,3	MCF-7	breast:
5	chr3:161024510..161027943-chr3:161039749..161042505,4	MCF-7	breast:
6	chr3:161009978..161012586-chr3:161040587..161043038,3	MCF-7	breast:
7	chr3:161040559..161042979-chr3:161133154..161135842,2	MCF-7	breast:
8	chr3:161040460..161042970-chr3:161125296..161126963,2	MCF-7	breast:
9	chr3:161040220..161042157-chr3:161138208..161140268,2	MCF-7	breast:
10	chr3:161006869..161011120-chr3:161039575..161043501,7	MCF-7	breast:
11	chr3:161041557..161042091-chr3:161129690..161130207,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10513566	0.86[ASN][1000 genomes]
rs12632537	0.87[EUR][1000 genomes]
rs12634006	0.95[EUR][1000 genomes]
rs16832203	0.84[EUR][1000 genomes]
rs17418895	0.86[ASN][1000 genomes]
rs28713364	0.86[EUR][1000 genomes]
rs34759927	1.00[AMR][1000 genomes]
rs35590548	1.00[AMR][1000 genomes]
rs36015194	0.86[EUR][1000 genomes]
rs57278490	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57496534	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57803909	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57916312	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs57974280	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs58557417	0.84[EUR][1000 genomes]
rs58562874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58878734	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59371901	0.86[EUR][1000 genomes]
rs59541314	0.87[EUR][1000 genomes]
rs59686054	0.86[ASN][1000 genomes]
rs59761692	0.95[EUR][1000 genomes]
rs59777031	0.86[ASN][1000 genomes]
rs59964190	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60400555	0.87[EUR][1000 genomes]
rs60612225	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60684226	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60866328	0.86[EUR][1000 genomes]
rs61048679	0.86[ASN][1000 genomes]
rs61217744	0.95[EUR][1000 genomes]
rs6788738	0.86[EUR][1000 genomes]
rs6798468	0.86[EUR][1000 genomes]
rs73023224	0.86[EUR][1000 genomes]
rs73878307	0.95[EUR][1000 genomes]
rs73878308	0.95[EUR][1000 genomes]
rs73878311	0.95[EUR][1000 genomes]
rs73878313	0.87[EUR][1000 genomes]
rs73878321	0.87[EUR][1000 genomes]
rs73878322	0.87[EUR][1000 genomes]
rs73878324	0.87[EUR][1000 genomes]
rs73878325	0.87[EUR][1000 genomes]
rs73878328	0.87[EUR][1000 genomes]
rs7625217	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs873183	0.95[EUR][1000 genomes]
rs896080	0.95[EUR][1000 genomes]
rs9834806	0.86[EUR][1000 genomes]
rs9839335	1.00[AMR][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	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv4091	chr3:161018540-161063875	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161041200-161041800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
2	chr3:161041200-161041800	Enhancers	A549	lung
3	chr3:161041200-161041800	Flanking Active TSS	HepG2	liver
4	chr3:161041400-161042400	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links