Variant report

Variant	rs3780236
Chromosome Location	chr9:17672517-17672518
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 85 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:78)

rs_ID	r²[population]
rs1000770	0.87[CHB][hapmap]
rs10118522	0.96[CHB][hapmap];0.82[JPT][hapmap]
rs10738482	0.85[CEU][hapmap];0.91[CHB][hapmap];0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10738485	0.92[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap]
rs10756895	0.82[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10756896	0.92[CEU][hapmap];0.90[CHB][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10756910	0.86[CHB][hapmap]
rs10810817	0.92[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10810818	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10810819	0.91[ASN][1000 genomes]
rs10810821	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10810822	0.83[CEU][hapmap];0.95[CHB][hapmap];0.85[YRI][hapmap]
rs10810828	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs10963190	0.84[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs10963191	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10963195	0.92[ASN][1000 genomes]
rs10963196	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10963210	0.93[CEU][hapmap];0.87[CHB][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1536064	1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs1536065	0.88[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1536066	0.86[CHB][hapmap]
rs1536069	0.86[CEU][hapmap];0.88[EUR][1000 genomes]
rs2025559	1.00[CEU][hapmap];0.91[JPT][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2147729	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2147735	0.91[CHB][hapmap]
rs2147736	0.83[CEU][hapmap];0.96[CHB][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2182083	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2182084	0.85[CEU][hapmap];0.91[CHB][hapmap];0.88[YRI][hapmap]
rs2182085	0.95[CHB][hapmap];0.85[JPT][hapmap];0.85[ASN][1000 genomes]
rs2182086	0.83[CEU][hapmap];0.91[CHB][hapmap];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2182087	0.84[CEU][hapmap];0.83[YRI][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2182090	0.85[CEU][hapmap];0.95[CHB][hapmap];0.84[YRI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2209433	0.92[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2209434	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2209435	0.83[CEU][hapmap];0.91[CHB][hapmap]
rs2383044	0.87[CHB][hapmap]
rs3780232	0.92[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs3780234	0.85[CEU][hapmap];0.91[CHB][hapmap]
rs3780235	0.86[CEU][hapmap];0.87[CHB][hapmap];0.85[YRI][hapmap];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs3808700	0.82[CHB][hapmap]
rs3808704	0.96[CHB][hapmap];0.91[JPT][hapmap];0.90[ASN][1000 genomes]
rs3808707	0.96[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3808708	0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3808709	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs3808711	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs3808712	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs3808713	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs3808714	0.91[CHB][hapmap]
rs3808716	0.93[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3808717	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs3808718	0.85[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap]
rs3808719	0.96[CHB][hapmap];0.83[ASN][1000 genomes]
rs3808720	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3808721	0.93[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3808723	0.96[CHB][hapmap];0.85[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3808726	0.81[EUR][1000 genomes]
rs3824383	0.92[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4418424	0.85[CEU][hapmap];0.91[CHB][hapmap];0.84[YRI][hapmap]
rs4578059	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4601434	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs67384654	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7020158	0.81[CEU][hapmap];0.91[CHB][hapmap];0.89[YRI][hapmap];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7021836	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7031459	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs717373	0.82[AMR][1000 genomes]
rs7847174	0.81[AMR][1000 genomes]
rs7847297	0.84[ASN][1000 genomes]
rs7856894	0.87[CHB][hapmap];0.89[YRI][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7858624	0.94[CHB][hapmap];1.00[JPT][hapmap]
rs7862689	0.80[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7866654	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7866898	0.85[YRI][hapmap];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7870919	0.85[CEU][hapmap];0.91[CHB][hapmap];0.84[YRI][hapmap]
rs7874762	0.91[CHB][hapmap]
rs7875460	0.88[ASN][1000 genomes]
rs7875763	0.85[CEU][hapmap];0.91[JPT][hapmap];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs961372	0.83[CEU][hapmap];0.96[CHB][hapmap];0.89[YRI][hapmap];0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs998599	0.86[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv613693	chr9:17147191-17710407	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
2	nsv471287	chr9:17165698-17708814	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv466269	chr9:17165698-17710407	Weak transcription ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
4	nsv892674	chr9:17631186-17699981	Enhancers Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
5	nsv1016971	chr9:17648242-17720176	Enhancers Weak transcription Active TSS Flanking Active TSS	n/a	n/a	inside rSNPs	diseases
6	nsv1021022	chr9:17649360-17723730	Enhancers Weak transcription Flanking Active TSS Active TSS	n/a	n/a	inside rSNPs	diseases
7	nsv982602	chr9:17671844-17676006	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:17672000-17673200	Enhancers	Fetal Brain Male	brain
2	chr9:17672200-17672600	Enhancers	Pancreatic Islets	Pancreatic Islet

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