Variant report

Variant	rs10809002
Chromosome Location	chr9:10010107-10010108
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10511529	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs10738145	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10739208	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs10755990	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10755991	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10755999	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs10759118	0.80[CHB][hapmap]
rs10759123	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10759124	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10759125	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10809003	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10809004	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10809005	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10809006	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10809007	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10809008	0.88[ASN][1000 genomes]
rs10809009	0.88[ASN][1000 genomes]
rs10809013	0.90[ASN][1000 genomes]
rs10809018	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs10809019	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs10816274	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10816275	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10816276	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10816277	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10958815	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10958825	0.90[ASN][1000 genomes]
rs10978157	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1217003	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs1217004	0.95[CHB][hapmap];0.94[JPT][hapmap]
rs12375502	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1238877	0.90[CHB][hapmap];0.94[JPT][hapmap]
rs1343534	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs1343535	0.95[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs16930828	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1936366	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2000298	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs2096316	0.91[CHB][hapmap];0.95[JPT][hapmap]
rs2211514	0.93[ASN][1000 genomes]
rs2211515	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2382090	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs2382092	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs2382101	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs2890899	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs291277	0.86[CHB][hapmap];0.95[JPT][hapmap]
rs4305952	1.00[CEU][hapmap];0.95[CHB][hapmap];0.94[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4333668	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs4410955	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4425814	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4497018	1.00[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4560848	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs4741003	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs4742646	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs6477434	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs6477435	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs7022969	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7027578	0.81[CHB][hapmap];0.95[JPT][hapmap]
rs7028276	0.90[CHB][hapmap];0.94[JPT][hapmap];0.88[ASN][1000 genomes]
rs7040189	0.90[CHB][hapmap];0.90[JPT][hapmap]
rs727756	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7847554	0.86[JPT][hapmap]
rs7858099	0.85[CHB][hapmap];0.90[JPT][hapmap]
rs7858619	0.86[JPT][hapmap]
rs7873893	0.80[CHB][hapmap];0.85[JPT][hapmap]
rs7874659	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs7874951	0.80[CHB][hapmap];0.95[JPT][hapmap]
rs9299106	0.81[CHB][hapmap];0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:23 , 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	nsv1025234	chr9:9905178-10011184	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	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
5	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
6	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
7	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
8	nsv1017182	chr9:9945265-10011933	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases
9	nsv1018157	chr9:9945648-10014310	Active TSS Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases
10	nsv525613	chr9:9957866-10011571	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers	n/a	n/a	inside rSNPs	diseases
11	nsv526124	chr9:9957866-10011571	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases
12	nsv613366	chr9:9957866-10011571	Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
13	nsv613367	chr9:9957866-10025975	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	n/a	n/a	inside rSNPs	diseases
14	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
15	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
16	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
17	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
18	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
19	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
20	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
21	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
22	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
23	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

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:10007000-10010800	Enhancers	HUES6 Cell Line	embryonic stem cell
2	chr9:10007200-10012400	Enhancers	iPS-20b Cell Line	embryonic stem cell
3	chr9:10007400-10010600	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr9:10008200-10010600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr9:10008200-10012800	Enhancers	HUES64 Cell Line	embryonic stem cell
6	chr9:10008600-10013000	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr9:10008600-10013400	Enhancers	HUES48 Cell Line	embryonic stem cell
8	chr9:10008800-10011400	Weak transcription	H1 Cell Line	embryonic stem cell
9	chr9:10009400-10010600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr9:10009400-10012600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr9:10009400-10012800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr9:10010000-10010200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:10010000-10011200	Weak transcription	ES-I3 Cell Line	embryonic stem cell

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