Variant report

Variant	rs9839138
Chromosome Location	chr3:86700929-86700930
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1158572	0.90[EUR][1000 genomes]
rs12631630	0.90[EUR][1000 genomes]
rs12636089	0.90[EUR][1000 genomes]
rs12637404	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13068976	0.89[EUR][1000 genomes]
rs13089444	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs35026018	0.90[EUR][1000 genomes]
rs35725686	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs4331677	0.86[EUR][1000 genomes]
rs4423767	0.90[EUR][1000 genomes]
rs4528946	0.88[EUR][1000 genomes]
rs4552353	0.88[EUR][1000 genomes]
rs4555522	0.90[EUR][1000 genomes]
rs4589938	0.88[EUR][1000 genomes]
rs4613455	0.91[EUR][1000 genomes]
rs4634118	0.86[EUR][1000 genomes]
rs4855155	0.88[EUR][1000 genomes]
rs4855157	0.90[EUR][1000 genomes]
rs4855159	0.90[EUR][1000 genomes]
rs60037607	0.85[EUR][1000 genomes]
rs6763447	0.90[EUR][1000 genomes]
rs6797231	0.83[EUR][1000 genomes]
rs6800896	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6804348	0.84[EUR][1000 genomes]
rs7621447	0.89[EUR][1000 genomes]
rs7652288	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7652534	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9810220	0.84[EUR][1000 genomes]
rs9811859	0.90[EUR][1000 genomes]
rs9813778	0.86[CEU][hapmap]
rs9815232	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs9822222	0.85[EUR][1000 genomes]
rs9828696	0.89[EUR][1000 genomes]
rs9835126	0.86[CEU][hapmap]
rs9835169	0.86[CEU][hapmap]
rs9839595	0.90[EUR][1000 genomes]
rs9849115	0.90[EUR][1000 genomes]
rs9854920	0.90[EUR][1000 genomes]
rs9859549	0.90[EUR][1000 genomes]
rs9868939	0.90[EUR][1000 genomes]
rs9869426	0.90[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	nsv877116	chr3:86518318-86964922	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv1829775	chr3:86534927-86822085	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv877117	chr3:86665408-86927574	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	nsv1009339	chr3:86673173-86725713	Weak transcription Enhancers ZNF genes & repeats Active TSS	lncRNA	2 gene(s)	inside rSNPs	n/a
5	esv1794028	chr3:86684769-86822085	Enhancers Active TSS Weak transcription ZNF genes & repeats	lncRNA	11 gene(s)	inside rSNPs	n/a
6	esv1827728	chr3:86684769-86822085	Enhancers Weak transcription ZNF genes & repeats Active TSS	lncRNA	11 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	chr3:86696600-86701800	Weak transcription	Cortex derived primary cultured neurospheres	brain
2	chr3:86700800-86708200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links