Variant report

Variant	rs1017799
Chromosome Location	chr3:161042564-161042565
allele	A/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:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 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	chr3:160942925..160944989-chr3:161039772..161043116,3	MCF-7	breast:
4	chr3:160940058..160942666-chr3:161042036..161044035,3	MCF-7	breast:
5	chr3:161009978..161012586-chr3:161040587..161043038,3	MCF-7	breast:
6	chr3:161040559..161042979-chr3:161133154..161135842,2	MCF-7	breast:
7	chr3:161040460..161042970-chr3:161125296..161126963,2	MCF-7	breast:
8	chr3:161006869..161011120-chr3:161039575..161043501,7	MCF-7	breast:
9	chr3:161041936..161043684-chr3:161128783..161133001,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000271052	Chromatin interaction
ENSG00000196542	Chromatin interaction

Extended variants
information (count: 105 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs12486069	0.81[ASN][1000 genomes]
rs12486111	0.89[JPT][hapmap]
rs12486998	0.89[JPT][hapmap]
rs12487002	0.90[JPT][hapmap]
rs12488127	0.89[JPT][hapmap]
rs12489004	1.00[CHB][hapmap];0.86[JPT][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12489125	0.81[ASN][1000 genomes]
rs12490149	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12494520	0.82[AMR][1000 genomes]
rs12494725	0.81[AMR][1000 genomes]
rs12496235	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs13315320	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13319558	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13319771	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1450518	0.88[JPT][hapmap]
rs16831942	0.81[ASN][1000 genomes]
rs2306209	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28451189	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28704960	0.81[ASN][1000 genomes]
rs28713364	0.91[AMR][1000 genomes]
rs4296611	0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4352387	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4468992	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4580574	0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4635725	0.94[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs57903480	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59567999	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59757775	0.83[ASN][1000 genomes]
rs59776766	0.81[ASN][1000 genomes]
rs60121330	0.81[ASN][1000 genomes]
rs6441363	0.88[AMR][1000 genomes]
rs6441365	0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6441372	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6441375	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6762064	0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6774919	0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6775446	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6775931	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6778186	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6781086	0.85[AMR][1000 genomes]
rs6782415	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6782518	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6785714	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6787447	0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6787697	0.80[AMR][1000 genomes]
rs6788738	0.91[AMR][1000 genomes]
rs6790805	0.85[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6793980	0.83[AMR][1000 genomes]
rs6794601	0.89[JPT][hapmap]
rs6801664	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6805976	0.89[JPT][hapmap];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73017340	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026933	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs73026967	0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026968	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026983	0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026987	0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026989	0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73878309	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7615833	1.00[CHB][hapmap];0.81[JPT][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7615868	0.89[JPT][hapmap];0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7624791	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7626773	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7634299	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7651924	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7652624	0.82[CHB][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9290070	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9290071	0.94[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9810351	0.81[ASN][1000 genomes]
rs9812574	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9818470	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9819793	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9822705	1.00[CHB][hapmap];0.89[JPT][hapmap];0.91[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9822916	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9824535	0.81[ASN][1000 genomes]
rs9824805	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9826857	0.81[ASN][1000 genomes]
rs9830183	0.91[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9833270	0.88[JPT][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9834806	0.88[AMR][1000 genomes]
rs9835530	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9838945	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9841871	0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9842290	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9847842	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9850455	0.90[JPT][hapmap]
rs9851699	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9855112	0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9855572	0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9856742	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9858907	0.81[ASN][1000 genomes]
rs9859641	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9860980	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.87[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9862867	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9871753	0.88[JPT][hapmap];0.94[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9872514	0.90[JPT][hapmap]
rs9876077	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9877309	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.88[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9880536	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9884100	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9985364	0.94[AMR][1000 genomes];0.90[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	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:1 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161042200-161043800	Enhancers	HepG2	liver

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