Variant report

Variant	rs9560340
Chromosome Location	chr13:90117384-90117385
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1113478	0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1158015	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1158016	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11619411	0.80[EUR][1000 genomes]
rs1199479	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12584227	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12874844	0.82[EUR][1000 genomes]
rs1504437	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1504438	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1504439	0.82[EUR][1000 genomes]
rs17395268	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2047905	0.80[EUR][1000 genomes]
rs34294912	0.83[EUR][1000 genomes]
rs35003959	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3736408	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs471682	0.88[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4771786	0.81[EUR][1000 genomes]
rs4773472	0.81[EUR][1000 genomes]
rs4773473	0.81[EUR][1000 genomes]
rs4773474	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4773475	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs572497	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs574402	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs620909	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs633976	0.83[EUR][1000 genomes]
rs657998	0.85[EUR][1000 genomes]
rs669093	0.85[EUR][1000 genomes]
rs671140	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7318774	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7332656	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7996556	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8001088	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs8001305	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9515571	0.80[EUR][1000 genomes]
rs9522556	0.81[EUR][1000 genomes]
rs9522558	0.80[EUR][1000 genomes]
rs9522562	0.82[EUR][1000 genomes]
rs9555890	0.82[EUR][1000 genomes]
rs9555901	0.90[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9555902	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9555906	0.82[EUR][1000 genomes]
rs9560339	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9560341	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9560355	0.91[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs9560356	0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs9560374	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915862	chr13:89408920-90118030	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1040210	chr13:89584630-90156186	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1048574	chr13:89650680-90232894	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1044807	chr13:89991827-90263328	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1039775	chr13:89995537-90260944	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv900860	chr13:90008941-90259291	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv428613	chr13:90012119-90165711	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv533455	chr13:90041897-90255725	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv900862	chr13:90067507-90129913	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv900863	chr13:90067507-90145824	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv1053657	chr13:90100510-90578568	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
12	nsv900864	chr13:90110725-90173515	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:90117200-90118000	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:90117200-90118200	Enhancers	HMEC	breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links