Variant report

Variant	rs10959045
Chromosome Location	chr9:10326667-10326668
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:59)

rs_ID	r²[population]
rs10114902	0.82[AMR][1000 genomes]
rs10118721	0.84[AFR][1000 genomes];0.89[AMR][1000 genomes]
rs10123173	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10511544	0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[YRI][hapmap]
rs10756023	0.81[CEU][hapmap]
rs10756025	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10756026	0.85[AMR][1000 genomes]
rs10756027	0.85[CEU][hapmap];0.94[CHB][hapmap];0.91[JPT][hapmap]
rs10756028	0.91[JPT][hapmap];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10809060	0.90[JPT][hapmap]
rs10809070	0.81[JPT][hapmap];0.84[AMR][1000 genomes]
rs10959014	0.86[CEU][hapmap]
rs10959026	0.86[CEU][hapmap]
rs10959043	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10959048	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs10959049	0.84[AMR][1000 genomes]
rs10959050	0.81[CEU][hapmap];0.93[YRI][hapmap];0.84[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs10959051	0.82[CEU][hapmap];0.86[YRI][hapmap]
rs12000957	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12000959	0.89[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs1323498	0.86[CEU][hapmap]
rs1323499	0.90[JPT][hapmap]
rs1323500	0.86[CEU][hapmap]
rs1407925	0.86[CEU][hapmap]
rs1535663	0.83[CEU][hapmap]
rs1924084	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs587791	0.81[JPT][hapmap]
rs597087	0.84[CHB][hapmap];0.91[JPT][hapmap]
rs600075	0.81[JPT][hapmap]
rs603924	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs605257	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs605318	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs609528	0.81[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap]
rs612312	0.81[CEU][hapmap];0.84[CHB][hapmap];0.89[JPT][hapmap]
rs616040	0.85[CEU][hapmap]
rs617900	0.84[CHB][hapmap];0.91[JPT][hapmap]
rs629243	0.84[CHB][hapmap];0.91[JPT][hapmap]
rs633062	0.84[CHB][hapmap];0.91[JPT][hapmap]
rs635858	0.94[CHB][hapmap];0.90[JPT][hapmap]
rs635925	0.81[CEU][hapmap]
rs638180	0.81[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap]
rs647328	0.81[JPT][hapmap]
rs679856	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs680760	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs684853	0.81[CEU][hapmap]
rs694201	0.86[CEU][hapmap]
rs694209	0.86[CEU][hapmap]
rs7849722	0.83[AMR][1000 genomes]
rs7851619	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7854874	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7871892	0.95[CHB][hapmap]
rs880634	0.85[CEU][hapmap]
rs942158	0.85[CEU][hapmap]
rs942159	0.91[JPT][hapmap]
rs9657580	0.95[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9987444	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9987798	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9987808	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9987891	0.95[CEU][hapmap];0.94[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1034731	chr9:9776126-10481262	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv892295	chr9:9832245-10380406	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1030657	chr9:10002355-10481262	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv1033178	chr9:10169848-10428731	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	esv2758179	chr9:10188450-10370398	Enhancers Active TSS Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
6	esv2759666	chr9:10188450-10370398	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv1033020	chr9:10314941-10330352	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv2764134	chr9:10314941-10330364	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
9	nsv516073	chr9:10314941-10333382	Enhancers Weak transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:10323600-10330200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr9:10325400-10330800	Weak transcription	HUES6 Cell Line	embryonic stem cell
3	chr9:10325400-10331200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr9:10325800-10331200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr9:10325800-10335800	Weak transcription	HUES64 Cell Line	embryonic stem cell

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