Variant report

Variant	rs9878472
Chromosome Location	chr3:85097345-85097346
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs11127876	0.82[CEU][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11713170	0.81[AMR][1000 genomes]
rs12714616	0.82[JPT][hapmap]
rs12714617	0.82[JPT][hapmap]
rs13061527	0.81[CEU][hapmap];0.85[AMR][1000 genomes]
rs13064817	0.80[AMR][1000 genomes]
rs13066623	0.82[JPT][hapmap]
rs13074075	0.90[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13078384	1.00[CHB][hapmap]
rs13078494	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13095644	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs13096651	0.90[ASN][1000 genomes]
rs13097560	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2101344	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2171140	0.82[EUR][1000 genomes]
rs2171143	1.00[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs34201102	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4516626	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4635723	0.83[AMR][1000 genomes]
rs66500121	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6775752	0.85[CEU][hapmap];0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6791035	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6791363	1.00[CHB][hapmap];0.81[ASN][1000 genomes]
rs6808586	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7623714	0.81[CEU][hapmap];0.89[AMR][1000 genomes]
rs7628129	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7630382	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9284802	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9309967	1.00[CHB][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs9309969	0.81[CEU][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs9814600	0.87[AMR][1000 genomes]
rs9815258	0.82[JPT][hapmap]
rs9818659	0.82[JPT][hapmap]
rs9819278	0.89[AMR][1000 genomes]
rs9821807	0.82[JPT][hapmap]
rs9823454	0.82[JPT][hapmap]
rs9828496	0.82[JPT][hapmap]
rs9835904	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs9838091	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs9839194	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs9846802	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs9860513	0.81[JPT][hapmap]
rs9873321	1.00[CHB][hapmap]
rs9875381	0.81[CEU][hapmap];0.85[AMR][1000 genomes]
rs9876378	0.81[ASN][1000 genomes]
rs9878707	0.81[ASN][1000 genomes]
rs9881257	0.82[JPT][hapmap]
rs9883252	0.82[CEU][hapmap];0.88[AMR][1000 genomes];0.82[EUR][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	nsv1002058	chr3:84757044-85389876	Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	esv3419993	chr3:85030343-85663403	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases
3	nsv492289	chr3:85066623-85319147	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	esv2753915	chr3:85071410-85624810	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:85092200-85099400	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:85096200-85103200	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links