Variant report

Variant	rs4889018
Chromosome Location	chr16:79773291-79773292
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	chr16:79770481..79771992-chr16:79772234..79774544,2	MCF-7	breast:

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:89)

rs_ID	r²[population]
rs10871377	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10871378	1.00[CHB][hapmap];0.84[JPT][hapmap];0.91[ASN][1000 genomes]
rs11150194	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11150195	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11150196	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11150197	0.90[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11150198	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11640485	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11640827	0.83[ASN][1000 genomes]
rs11646174	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11648369	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11649433	0.81[ASN][1000 genomes]
rs11649483	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11864576	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11864742	0.88[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12373096	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12598937	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12599770	1.00[CHB][hapmap];0.90[ASN][1000 genomes]
rs12600028	0.84[ASN][1000 genomes]
rs12716880	0.99[ASN][1000 genomes]
rs12921991	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12932883	0.81[ASN][1000 genomes]
rs12935201	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13334268	0.81[JPT][hapmap]
rs13337701	0.89[JPT][hapmap]
rs13337703	0.88[JPT][hapmap]
rs16951299	0.84[JPT][hapmap]
rs16951310	0.84[JPT][hapmap]
rs16951312	0.89[JPT][hapmap]
rs16951320	0.84[JPT][hapmap]
rs16951359	0.89[JPT][hapmap]
rs3813578	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4243178	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4243179	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4274450	0.84[ASN][1000 genomes]
rs4296269	0.84[JPT][hapmap]
rs4319782	0.89[JPT][hapmap]
rs4325577	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4327063	0.84[JPT][hapmap]
rs4360949	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4372706	0.89[JPT][hapmap]
rs4387616	0.92[CHB][hapmap];0.87[JPT][hapmap];0.82[ASN][1000 genomes]
rs4395087	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4420544	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4435267	1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];0.94[JPT][hapmap];0.83[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4450408	0.81[ASN][1000 genomes]
rs4470160	0.89[JPT][hapmap]
rs4485383	1.00[CHB][hapmap];0.94[JPT][hapmap];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4506910	0.81[ASN][1000 genomes]
rs4547344	0.84[JPT][hapmap]
rs4556800	0.83[ASN][1000 genomes]
rs4567730	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs4567731	0.89[JPT][hapmap]
rs4609863	0.81[ASN][1000 genomes]
rs4614737	0.83[JPT][hapmap]
rs4632143	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4889017	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4889019	0.84[ASN][1000 genomes]
rs4889020	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4889021	0.97[ASN][1000 genomes]
rs4889022	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4889026	0.84[JPT][hapmap]
rs6564694	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6564700	0.84[JPT][hapmap]
rs6564701	0.84[JPT][hapmap]
rs6564702	0.89[JPT][hapmap]
rs6564703	0.88[JPT][hapmap]
rs6564704	0.89[JPT][hapmap]
rs7186075	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7190102	0.84[JPT][hapmap]
rs7190298	0.84[JPT][hapmap]
rs7190488	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7191995	0.83[JPT][hapmap]
rs7192691	0.82[ASN][1000 genomes]
rs7196084	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7205712	0.88[JPT][hapmap]
rs8045678	0.84[JPT][hapmap]
rs8049118	0.81[ASN][1000 genomes]
rs8049124	0.81[ASN][1000 genomes]
rs8054169	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8056945	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs8060038	0.84[JPT][hapmap]
rs8060072	0.89[JPT][hapmap]
rs8062324	0.84[JPT][hapmap]
rs9673780	0.84[JPT][hapmap]
rs9921624	0.84[JPT][hapmap]
rs9923844	0.84[JPT][hapmap]
rs9927594	0.89[JPT][hapmap]
rs9927598	0.84[JPT][hapmap]

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	nsv573285	chr16:79158182-80127326	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
2	nsv530714	chr16:79661581-79925435	Weak transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv833296	chr16:79692236-79889727	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv833297	chr16:79732501-79920419	Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr16:79756800-79774200	Weak transcription	Ovary	ovary
2	chr16:79772400-79773600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr16:79772600-79785600	Weak transcription	Fetal Lung	lung
4	chr16:79772800-79774200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr16:79772800-79775600	Enhancers	Fetal Intestine Small	intestine
6	chr16:79773200-79774400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links