Variant report

Variant	rs9869426
Chromosome Location	chr3:86702716-86702717
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1158572	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12631630	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12636089	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12637404	0.90[EUR][1000 genomes]
rs13068976	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13089444	0.91[EUR][1000 genomes]
rs35026018	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35725686	0.89[EUR][1000 genomes]
rs4331677	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4423767	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4528946	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4552353	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4555522	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4589938	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4605551	0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs4613455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4634118	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4855155	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4855157	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4855159	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs60037607	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6763447	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6797231	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6804348	0.95[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7621447	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7652288	0.90[EUR][1000 genomes]
rs7652534	0.91[EUR][1000 genomes]
rs9811859	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9815232	0.89[EUR][1000 genomes]
rs9822222	0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9828696	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9839138	0.90[EUR][1000 genomes]
rs9839595	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9849115	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9854920	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9859549	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9868939	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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
7	nsv1005747	chr3:86701703-86792434	Enhancers Active TSS ZNF genes & repeats Weak transcription	lncRNA	11 gene(s)	inside rSNPs	n/a
8	nsv536630	chr3:86701703-86792434	Weak transcription ZNF genes & repeats Enhancers Active TSS	lncRNA	11 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:86700800-86708200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr3:86701800-86704400	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr3:86702400-86703000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr3:86702400-86703000	Enhancers	Brain Germinal Matrix	brain
5	chr3:86702600-86702800	Enhancers	Fetal Intestine Large	intestine
6	chr3:86702600-86702800	Enhancers	Fetal Intestine Small	intestine
7	chr3:86702600-86703200	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr3:86702600-86703200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr3:86702600-86703200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr3:86702600-86703200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr3:86702600-86703400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

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