Variant report

Variant	rs291277
Chromosome Location	chr9:10041086-10041087
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10511529	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs10739208	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs10755999	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs10756000	0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10759118	0.80[CHB][hapmap]
rs10759124	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs10759125	0.80[ASN][1000 genomes]
rs10809002	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs10809003	0.90[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs10809004	0.90[CHB][hapmap];0.89[JPT][hapmap];0.81[ASN][1000 genomes]
rs10809013	0.80[ASN][1000 genomes]
rs10809018	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10809019	0.81[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10809020	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10809021	0.90[ASN][1000 genomes]
rs10816274	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs10816275	0.85[CHB][hapmap];0.95[JPT][hapmap]
rs10816276	0.86[CHB][hapmap];0.89[JPT][hapmap]
rs10958825	0.80[ASN][1000 genomes]
rs10978157	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs12006270	0.98[ASN][1000 genomes]
rs1217003	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1217004	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1238877	0.86[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12554898	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1310161	0.91[AFR][1000 genomes];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13294987	0.98[ASN][1000 genomes]
rs1343534	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs1343535	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs16930828	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs1936366	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs2000298	0.86[CHB][hapmap];0.84[JPT][hapmap]
rs2096316	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs2382090	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs2382092	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs2382101	0.90[JPT][hapmap]
rs2799082	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2890899	0.81[CHB][hapmap];0.90[JPT][hapmap]
rs291274	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs291276	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4305952	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs4333668	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs4425814	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs4497018	0.90[CHB][hapmap];0.89[JPT][hapmap]
rs4560848	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs4741003	0.90[JPT][hapmap]
rs4742646	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs6477434	0.90[JPT][hapmap]
rs6477435	0.90[JPT][hapmap]
rs7022969	0.85[JPT][hapmap]
rs7027578	0.90[JPT][hapmap]
rs7028276	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs7040189	0.81[CHB][hapmap];0.85[JPT][hapmap]
rs7041082	0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs727756	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs7847554	0.81[JPT][hapmap]
rs7858099	0.85[CHB][hapmap];0.85[JPT][hapmap]
rs7858619	0.81[JPT][hapmap]
rs7873893	0.80[CHB][hapmap];0.80[JPT][hapmap]
rs7874659	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs7874951	0.80[CHB][hapmap];0.90[JPT][hapmap]
rs9299106	0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 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	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
12	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
13	nsv1027674	chr9:10016077-10045136	Weak transcription Enhancers ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases
14	nsv539994	chr9:10016077-10045136	Weak transcription Enhancers ZNF genes & repeats	TF binding region	1 gene(s)	inside rSNPs	diseases
15	nsv831506	chr9:10040172-10204609	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	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	chr9:10040400-10042200	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr9:10040600-10041200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
3	chr9:10040600-10041800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr9:10040600-10046000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
5	chr9:10041000-10041600	Weak transcription	Fetal Heart	heart

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