Variant report

Variant	rs9555858
Chromosome Location	chr13:89852341-89852342
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:60)

rs_ID	r²[population]
rs10459312	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10459313	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11843359	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1330943	1.00[CEU][hapmap];0.90[JPT][hapmap]
rs1412091	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1412092	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1412093	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs1413464	0.87[ASN][1000 genomes]
rs1413465	0.85[ASN][1000 genomes]
rs1577150	0.83[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs178345	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs1888743	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs1931486	0.92[ASN][1000 genomes]
rs1981087	0.83[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs2120871	0.91[ASN][1000 genomes]
rs2166199	0.87[ASN][1000 genomes]
rs2348563	1.00[CEU][hapmap];0.91[JPT][hapmap]
rs2781300	0.85[ASN][1000 genomes]
rs314527	0.83[ASN][1000 genomes]
rs314533	0.87[CHB][hapmap];1.00[JPT][hapmap]
rs314537	0.88[ASN][1000 genomes]
rs314538	0.88[ASN][1000 genomes]
rs314539	0.88[ASN][1000 genomes]
rs314543	0.88[ASN][1000 genomes]
rs314545	0.88[ASN][1000 genomes]
rs314546	0.88[ASN][1000 genomes]
rs314547	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs314548	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs314549	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs314554	0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs314560	0.88[ASN][1000 genomes]
rs314566	0.82[ASN][1000 genomes]
rs314569	0.86[ASN][1000 genomes]
rs314571	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap]
rs314577	0.83[ASN][1000 genomes]
rs366604	0.84[ASN][1000 genomes]
rs375273	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3803211	0.85[JPT][hapmap]
rs387330	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs411403	0.86[ASN][1000 genomes]
rs415859	0.86[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs421843	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs430857	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs454137	0.86[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6492421	0.88[ASN][1000 genomes]
rs7320177	0.94[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7335501	0.91[ASN][1000 genomes]
rs9301544	0.86[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs9301546	0.92[ASN][1000 genomes]
rs9515542	0.96[ASN][1000 genomes]
rs9515543	0.94[ASN][1000 genomes]
rs9522473	0.91[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs9555857	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9560248	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9560249	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9560250	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9560251	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9560295	0.90[JPT][hapmap]
rs9588553	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.83[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9588556	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900821	chr13:89302824-89941209	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	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
3	esv2758339	chr13:89411081-89875974	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv2759957	chr13:89411081-89875974	ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	esv2757546	chr13:89539415-89864593	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	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
7	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
8	nsv900844	chr13:89721607-89944833	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
9	nsv900845	chr13:89758695-89864818	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
10	nsv832675	chr13:89772410-89926955	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv900847	chr13:89788636-89873873	ZNF genes & repeats Weak transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
12	nsv900850	chr13:89797903-89853255	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv900851	chr13:89797903-89941209	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
14	nsv900852	chr13:89817399-89908281	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
15	nsv900853	chr13:89824076-89873873	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
16	nsv900854	chr13:89824076-89898500	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
17	nsv900855	chr13:89824076-89908281	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
18	nsv900856	chr13:89824076-89922393	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
19	nsv900857	chr13:89824076-89934019	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
20	nsv900858	chr13:89830501-89873873	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	4 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	chr13:89850800-89852400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr13:89851800-89852800	Enhancers	NHEK	skin
3	chr13:89852200-89852800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links