Variant report

Variant	rs405039
Chromosome Location	chr9:17076950-17076951
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 97 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:91)

rs_ID	r²[population]
rs10810711	0.86[AFR][1000 genomes]
rs10810718	0.85[CEU][hapmap]
rs10810719	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10810724	0.85[CEU][hapmap]
rs10962841	0.84[AFR][1000 genomes]
rs10962853	1.00[EUR][1000 genomes]
rs10962855	0.80[EUR][1000 genomes]
rs10962860	0.81[ASN][1000 genomes]
rs10962873	0.84[CEU][hapmap]
rs1617507	0.83[AFR][1000 genomes]
rs1617737	0.82[AFR][1000 genomes]
rs1725365	0.85[AFR][1000 genomes]
rs1948107	0.86[AFR][1000 genomes]
rs1948108	0.85[AFR][1000 genomes]
rs2246	0.86[AFR][1000 genomes]
rs2450534	0.85[AFR][1000 genomes]
rs2462942	0.84[AFR][1000 genomes]
rs2481546	0.83[AFR][1000 genomes]
rs2481552	0.84[AFR][1000 genomes]
rs2481553	0.81[AFR][1000 genomes]
rs2492868	0.82[AFR][1000 genomes]
rs2492869	0.82[AFR][1000 genomes]
rs2492870	0.84[AFR][1000 genomes]
rs263562	0.94[AFR][1000 genomes];0.98[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs263565	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs263566	0.97[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs263567	0.81[AFR][1000 genomes]
rs263618	0.88[CHB][hapmap];1.00[JPT][hapmap]
rs263619	0.83[CEU][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs263620	0.93[ASN][1000 genomes]
rs2774632	0.84[AFR][1000 genomes]
rs2815194	0.86[AFR][1000 genomes]
rs2950171	0.82[AFR][1000 genomes]
rs366216	0.89[YRI][hapmap]
rs368289	0.85[AFR][1000 genomes]
rs369822	0.85[AFR][1000 genomes]
rs371653	0.82[AFR][1000 genomes]
rs375152	0.85[AFR][1000 genomes]
rs378128	0.85[AFR][1000 genomes]
rs378407	0.85[AFR][1000 genomes]
rs380225	0.81[AFR][1000 genomes]
rs380977	0.85[AFR][1000 genomes]
rs381680	0.83[YRI][hapmap]
rs381883	0.84[ASN][1000 genomes]
rs383580	0.85[AFR][1000 genomes]
rs386172	0.82[AFR][1000 genomes]
rs386620	0.85[AFR][1000 genomes]
rs387903	0.86[AFR][1000 genomes]
rs388786	0.85[AFR][1000 genomes]
rs389432	0.84[AFR][1000 genomes]
rs389733	0.85[AFR][1000 genomes]
rs390114	0.85[AFR][1000 genomes]
rs390228	0.85[AFR][1000 genomes]
rs391156	0.85[AFR][1000 genomes]
rs391551	0.81[AFR][1000 genomes]
rs398715	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs399430	0.86[AFR][1000 genomes]
rs400582	0.86[AFR][1000 genomes]
rs400885	0.80[YRI][hapmap]
rs400972	0.86[AFR][1000 genomes]
rs404374	0.81[AFR][1000 genomes]
rs404912	0.85[AFR][1000 genomes]
rs407790	0.81[AFR][1000 genomes]
rs411013	0.83[AFR][1000 genomes]
rs412190	0.83[AFR][1000 genomes]
rs419062	0.81[AFR][1000 genomes]
rs420115	0.85[AFR][1000 genomes]
rs423395	0.86[AFR][1000 genomes]
rs425003	0.85[AFR][1000 genomes]
rs425455	0.82[AFR][1000 genomes]
rs426761	0.86[AFR][1000 genomes]
rs427659	0.84[ASN][1000 genomes]
rs428654	0.86[AFR][1000 genomes]
rs430616	0.85[AFR][1000 genomes]
rs431059	0.85[AFR][1000 genomes]
rs431342	0.85[AFR][1000 genomes]
rs435831	0.81[AFR][1000 genomes]
rs436873	0.85[AFR][1000 genomes]
rs441761	0.85[AFR][1000 genomes]
rs442431	0.86[AFR][1000 genomes]
rs444147	0.81[AFR][1000 genomes]
rs447681	0.85[AFR][1000 genomes]
rs448576	0.86[AFR][1000 genomes]
rs450371	0.85[AFR][1000 genomes]
rs452396	0.83[AFR][1000 genomes]
rs453801	0.86[AFR][1000 genomes]
rs454019	0.85[AFR][1000 genomes]
rs503467	0.86[AFR][1000 genomes]
rs914049	0.86[AFR][1000 genomes]
rs914050	0.86[AFR][1000 genomes]
rs914051	0.86[AFR][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	nsv1024799	chr9:16631890-17431827	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	esv2764141	chr9:16903446-17351711	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv892657	chr9:17008137-17223492	Weak transcription Active TSS Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv892658	chr9:17041557-17532840	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv1033462	chr9:17046823-17081683	Weak transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv1019424	chr9:17049320-17081683	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 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	chr9:17065000-17078200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr9:17076600-17081600	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr9:17076800-17081800	Weak transcription	Fetal Kidney	kidney

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