Variant report

Variant	rs1882394
Chromosome Location	chr4:85080933-85080934
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:85080575..85081559-chr4:85180120..85181416,6	MCF-7	breast:
2	chr4:85071031..85073190-chr4:85079864..85082804,2	MCF-7	breast:
3	chr4:85080701..85081585-chr4:85425136..85425979,2	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10017709	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10022978	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10025498	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10033438	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10516714	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10857224	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11933688	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13118466	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs13143306	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1344305	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17008055	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs17008130	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17008193	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1882386	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1882387	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1882390	0.85[EUR][1000 genomes]
rs1921857	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1921859	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1921860	0.84[EUR][1000 genomes]
rs1921862	0.84[EUR][1000 genomes]
rs1921863	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1921866	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1950126	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1950127	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1950128	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1997477	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1997478	0.93[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2103383	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2141805	0.84[EUR][1000 genomes]
rs2178601	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2178604	0.92[CEU][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28481766	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs28484825	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2868870	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs2868875	0.93[CEU][hapmap]
rs28698172	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2903945	0.88[EUR][1000 genomes]
rs34441355	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4693107	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4693108	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4693672	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4693674	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4693675	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56715771	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6535519	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6535520	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6815073	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6846444	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6856117	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs6856193	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7661961	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7669457	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7680539	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7683351	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7684582	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7684739	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7684962	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7695490	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9992012	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9994508	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9994528	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879512	chr4:84374692-85090749	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
2	nsv916422	chr4:84965304-85145657	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv524354	chr4:85006975-85215142	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv829996	chr4:85016673-85173300	Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv879514	chr4:85057124-85272572	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
6	nsv1012379	chr4:85071268-85205732	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 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	chr4:85079800-85081200	Bivalent Enhancer	Fetal Lung	lung
2	chr4:85080400-85084000	Enhancers	Fetal Intestine Small	intestine
3	chr4:85080600-85081800	Enhancers	Fetal Intestine Large	intestine

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links