Variant report

Variant	rs10809019
Chromosome Location	chr9:10035975-10035976
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs10511529	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs10738145	0.80[ASN][1000 genomes]
rs10739208	0.90[CHB][hapmap];0.84[JPT][hapmap]
rs10755990	0.80[ASN][1000 genomes]
rs10755991	0.80[ASN][1000 genomes]
rs10755999	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10756000	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10759118	0.85[CHB][hapmap]
rs10759123	0.80[ASN][1000 genomes]
rs10759124	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10759125	0.83[ASN][1000 genomes]
rs10809002	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs10809003	1.00[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs10809004	1.00[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs10809005	0.80[ASN][1000 genomes]
rs10809006	0.80[ASN][1000 genomes]
rs10809007	0.80[ASN][1000 genomes]
rs10809008	0.80[ASN][1000 genomes]
rs10809009	0.80[ASN][1000 genomes]
rs10809013	0.84[ASN][1000 genomes]
rs10809018	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10809020	0.97[ASN][1000 genomes]
rs10809021	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10816274	1.00[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs10816275	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs10816276	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs10958815	0.80[ASN][1000 genomes]
rs10958825	0.84[ASN][1000 genomes]
rs10978157	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs12006270	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1217003	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs1217004	0.81[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12375502	0.80[ASN][1000 genomes]
rs1238877	0.95[CHB][hapmap];0.95[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12554898	0.97[ASN][1000 genomes]
rs1310161	0.94[ASN][1000 genomes]
rs13294987	0.95[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1343534	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs1343535	1.00[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs16930828	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs1936366	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs2000298	0.90[CHB][hapmap];0.84[JPT][hapmap]
rs2096316	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs2382090	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs2382092	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs2382101	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs2799082	0.94[ASN][1000 genomes]
rs2890899	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs291274	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs291276	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs291277	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4305952	1.00[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs4333668	1.00[CHB][hapmap];0.89[JPT][hapmap]
rs4410955	0.80[ASN][1000 genomes]
rs4425814	1.00[CHB][hapmap];0.94[JPT][hapmap];0.81[ASN][1000 genomes]
rs4497018	0.95[CHB][hapmap];0.89[JPT][hapmap];0.80[ASN][1000 genomes]
rs4560848	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4741003	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs4742646	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs6477434	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs6477435	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7022969	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs7027578	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7028276	0.95[CHB][hapmap];0.88[JPT][hapmap]
rs7040189	0.86[CHB][hapmap];0.85[JPT][hapmap]
rs7041082	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs727756	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs7847554	0.80[JPT][hapmap]
rs7858099	0.90[CHB][hapmap];0.85[JPT][hapmap]
rs7858619	0.80[JPT][hapmap]
rs7873893	0.85[CHB][hapmap];0.80[JPT][hapmap]
rs7874659	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7874951	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs9299106	0.85[CHB][hapmap];0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:18 , 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	nsv1026679	chr9:9919783-10069385	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1032019	chr9:9919783-10070211	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv1021380	chr9:9943339-10126281	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv539989	chr9:9943339-10126281	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv892301	chr9:9971050-10144584	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv892302	chr9:9974221-10158866	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv466155	chr9:9989765-10091133	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv613370	chr9:9989765-10091133	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv1019977	chr9:9994437-10036626	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
12	nsv539992	chr9:9994437-10036626	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Bivalent Enhancer	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
13	nsv1027541	chr9:9994637-10036487	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
14	nsv539993	chr9:9994637-10036487	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers	TF binding region CpG island	1 gene(s)	inside rSNPs	diseases
15	esv2755136	chr9:9995882-10065206	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	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
17	nsv1027674	chr9:10016077-10045136	Weak transcription Enhancers ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases
18	nsv539994	chr9:10016077-10045136	Weak transcription Enhancers ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10809019	TYRP1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:10035600-10040000	Weak transcription	Pancreatic Islets	Pancreatic Islet

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