Variant report

Variant	rs770191
Chromosome Location	chr9:15861885-15861886
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 144 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:130)

rs_ID	r²[population]
rs1009468	0.88[ASW][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.80[ASN][1000 genomes]
rs10283865	0.89[CHB][hapmap]
rs10756690	0.84[CHB][hapmap]
rs10810427	0.83[CHB][hapmap]
rs10810428	0.84[CHB][hapmap]
rs10810429	0.82[CHB][hapmap]
rs10810438	0.94[CHB][hapmap];0.82[YRI][hapmap]
rs10810440	0.88[ASW][hapmap];0.88[CHB][hapmap];0.89[LWK][hapmap];0.83[YRI][hapmap]
rs10810442	1.00[CHB][hapmap]
rs1081245	0.95[AFR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs10962126	0.88[CHB][hapmap];0.88[LWK][hapmap]
rs10962147	1.00[CHB][hapmap];0.89[YRI][hapmap]
rs10962149	1.00[CHB][hapmap]
rs10962152	1.00[CHB][hapmap];0.96[YRI][hapmap]
rs10962153	1.00[CHB][hapmap];0.96[YRI][hapmap]
rs10962156	0.96[YRI][hapmap]
rs10962170	1.00[CHB][hapmap];0.81[JPT][hapmap];0.86[YRI][hapmap]
rs1169478	0.89[CEU][hapmap];0.94[CHB][hapmap];0.82[ASN][1000 genomes]
rs1169479	0.89[CEU][hapmap];0.94[CHB][hapmap];0.91[MEX][hapmap];0.89[TSI][hapmap];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1169480	0.89[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs1183919	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12341679	0.88[CHB][hapmap]
rs12377371	0.89[CHB][hapmap]
rs1328286	0.82[JPT][hapmap];0.85[TSI][hapmap]
rs1328288	1.00[CHB][hapmap]
rs13287834	0.87[YRI][hapmap]
rs1341734	1.00[CHB][hapmap];0.83[YRI][hapmap]
rs1341738	0.86[YRI][hapmap]
rs1355171	0.84[CHB][hapmap]
rs1355173	1.00[CHB][hapmap]
rs1359952	0.82[JPT][hapmap]
rs1359953	1.00[CHB][hapmap]
rs1396706	0.88[CHB][hapmap];0.83[YRI][hapmap]
rs1539171	1.00[CHB][hapmap]
rs1539173	0.96[YRI][hapmap]
rs1572978	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs1582200	0.83[AFR][1000 genomes]
rs1891211	0.89[CHB][hapmap]
rs1891212	0.84[CHB][hapmap]
rs1927696	0.82[JPT][hapmap]
rs1984246	0.89[CHB][hapmap]
rs2066292	0.88[ASW][hapmap];0.94[CHB][hapmap];0.90[CHD][hapmap];0.80[JPT][hapmap];0.91[LWK][hapmap];0.87[MKK][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2096121	1.00[CHB][hapmap];0.96[YRI][hapmap];0.80[AFR][1000 genomes]
rs2149231	1.00[CHB][hapmap]
rs2153725	1.00[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs2153726	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap]
rs2153727	0.87[ASW][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.82[ASN][1000 genomes]
rs2185665	1.00[CHB][hapmap];0.85[JPT][hapmap];0.82[ASN][1000 genomes]
rs2225181	0.82[CEU][hapmap];0.82[JPT][hapmap]
rs2382540	0.96[YRI][hapmap]
rs2382553	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.80[AFR][1000 genomes]
rs2794634	0.81[CEU][hapmap];1.00[CHB][hapmap]
rs2794636	0.83[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2794645	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2794646	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2794647	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2891007	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs2987011	0.85[TSI][hapmap]
rs2987013	0.81[TSI][hapmap]
rs2987069	1.00[CHB][hapmap]
rs2987070	1.00[CHB][hapmap]
rs2987071	0.81[CEU][hapmap];1.00[CHB][hapmap]
rs2987072	1.00[CHB][hapmap];0.82[TSI][hapmap]
rs3008686	0.81[CEU][hapmap];1.00[CHB][hapmap]
rs4146293	0.86[YRI][hapmap]
rs4741534	0.82[CHB][hapmap]
rs6474944	0.82[CHB][hapmap]
rs6474945	0.82[CHB][hapmap]
rs6474954	0.82[CHB][hapmap]
rs6474966	0.94[CHB][hapmap]
rs7019205	1.00[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs7019851	1.00[CHB][hapmap]
rs7024440	0.80[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs7027202	0.89[CHB][hapmap]
rs7032457	0.88[ASW][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.80[JPT][hapmap];0.86[YRI][hapmap];0.82[ASN][1000 genomes]
rs7032634	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.82[ASN][1000 genomes]
rs7034484	0.87[CHB][hapmap]
rs7034781	0.88[ASW][hapmap];0.94[CHB][hapmap];0.86[LWK][hapmap];0.83[YRI][hapmap]
rs7039881	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs7045018	1.00[CHB][hapmap]
rs7047045	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.82[ASN][1000 genomes]
rs735962	0.82[JPT][hapmap]
rs7388793	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs7467156	0.88[CHB][hapmap];0.83[YRI][hapmap]
rs7467207	0.83[CHB][hapmap]
rs770194	0.80[YRI][hapmap]
rs770200	1.00[YRI][hapmap];0.81[AFR][1000 genomes]
rs770201	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs770205	0.93[YRI][hapmap]
rs770207	1.00[YRI][hapmap];0.83[AFR][1000 genomes]
rs770211	0.84[CEU][hapmap];1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs770213	0.85[CEU][hapmap];1.00[CHB][hapmap];0.80[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs770215	0.82[CEU][hapmap];1.00[CHB][hapmap];0.84[ASN][1000 genomes]
rs7853744	1.00[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs7856877	0.81[AFR][1000 genomes]
rs7857126	0.82[ASN][1000 genomes]
rs7860354	0.82[AFR][1000 genomes]
rs7860528	0.81[CEU][hapmap];1.00[YRI][hapmap]
rs7860869	0.88[CHB][hapmap];0.83[YRI][hapmap]
rs7866641	1.00[CHB][hapmap];0.91[CHD][hapmap];0.81[JPT][hapmap]
rs7869624	0.88[ASW][hapmap];1.00[CHB][hapmap];0.84[LWK][hapmap];0.83[YRI][hapmap]
rs7872912	1.00[CHB][hapmap];0.83[YRI][hapmap]
rs809493	0.83[AFR][1000 genomes]
rs9298738	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs9298739	1.00[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes]
rs9298740	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9298741	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9406537	1.00[CHB][hapmap];0.88[CHD][hapmap];0.85[JPT][hapmap]
rs9406539	0.86[AFR][1000 genomes];0.81[ASN][1000 genomes]
rs9406540	0.81[ASN][1000 genomes]
rs9406541	0.82[ASN][1000 genomes]
rs9406542	1.00[CHB][hapmap];0.85[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9407648	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.82[ASN][1000 genomes]
rs9407649	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.82[ASN][1000 genomes]
rs9407650	1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[YRI][hapmap];0.80[ASN][1000 genomes]
rs9407651	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9407652	1.00[CHB][hapmap];0.85[JPT][hapmap];0.85[YRI][hapmap];0.82[ASN][1000 genomes]
rs9407653	0.80[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9407654	0.94[ASW][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.86[LWK][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9407655	0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs9407656	0.89[AFR][1000 genomes]
rs9407657	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs9407658	0.89[AFR][1000 genomes]
rs9407660	0.81[ASN][1000 genomes]
rs9407661	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs9407662	1.00[CHB][hapmap];0.86[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.83[ASN][1000 genomes]
rs9407664	0.82[AFR][1000 genomes]
rs9407668	0.86[AFR][1000 genomes]
rs9407669	0.95[AFR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9407671	0.96[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv892632	chr9:15590116-15869845	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv892633	chr9:15604746-15889411	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv892635	chr9:15731775-15876507	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
6	nsv528964	chr9:15760822-15875162	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv892636	chr9:15794858-15876507	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv613666	chr9:15823667-15875162	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv613667	chr9:15823667-15876507	Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv1016226	chr9:15841107-15875321	ZNF genes & repeats Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1015435	chr9:15841107-15880385	Enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv1032081	chr9:15845902-15878115	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv1027790	chr9:15845902-15878841	Enhancers ZNF genes & repeats Active TSS Weak transcription Strong transcription Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv519593	chr9:15855317-15861885	Weak transcription ZNF genes & repeats Enhancers Strong transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs770191	SHPRH	trans	cerebellum	SCAN
rs770191	C9orf93	cis	cerebellum	SCAN
rs770191	C9orf93	cis	parietal	SCAN

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15849000-15873800	Weak transcription	Fetal Lung	lung
2	chr9:15857800-15885400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr9:15858200-15862600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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