Variant report

Variant	rs10869770
Chromosome Location	chr9:79032236-79032237
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 75 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs10116800	0.82[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10118954	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10119732	0.95[ASN][1000 genomes]
rs10125012	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10125667	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10781358	1.00[ASN][1000 genomes]
rs10781359	0.95[ASN][1000 genomes]
rs10781360	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10869771	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[YRI][hapmap]
rs10869774	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11144870	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs11144875	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11144878	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11144881	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11144887	1.00[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11144894	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11144897	0.95[ASN][1000 genomes]
rs1129399	0.80[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11548954	0.89[ASN][1000 genomes]
rs11791951	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11793613	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11794019	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12156473	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12375735	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs12377856	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12377878	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12380332	0.84[ASN][1000 genomes]
rs12380522	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1324212	1.00[CHB][hapmap]
rs1324213	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1951910	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2377640	0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2377641	0.93[CEU][hapmap];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3187236	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4571791	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs55740812	0.94[ASN][1000 genomes]
rs57339182	0.84[ASN][1000 genomes]
rs57480680	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58136435	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.81[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59424752	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs61334567	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs62564441	0.90[ASN][1000 genomes]
rs62564442	0.90[ASN][1000 genomes]
rs62564446	0.84[ASN][1000 genomes]
rs62565109	0.83[ASN][1000 genomes]
rs62567918	0.94[ASN][1000 genomes]
rs62567919	0.89[ASN][1000 genomes]
rs62568690	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62568692	1.00[ASN][1000 genomes]
rs6560513	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs6560515	0.91[YRI][hapmap];0.88[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs6560516	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7023191	0.86[CHB][hapmap];0.92[YRI][hapmap];0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7025942	1.00[ASN][1000 genomes]
rs7026067	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7029439	0.89[AFR][1000 genomes];0.90[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7035385	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7037345	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7038009	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7038056	0.90[ASN][1000 genomes]
rs7040138	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7041690	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7047489	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7049245	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7851616	1.00[ASN][1000 genomes]
rs7852884	1.00[ASN][1000 genomes]
rs7853410	1.00[ASN][1000 genomes]
rs7854540	0.84[ASN][1000 genomes]
rs7859327	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7875575	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv931033	chr9:78850330-79366454	Genic enhancers Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv893478	chr9:78933874-79101006	Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv893479	chr9:78971253-79275226	Weak transcription Strong transcription Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	esv3451027	chr9:79021447-79056132	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79029600-79032800	Enhancers	Stomach Mucosa	stomach
2	chr9:79029800-79032600	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr9:79030000-79032600	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr9:79030400-79032600	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr9:79030400-79038200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr9:79031000-79033000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
7	chr9:79031600-79034400	Weak transcription	Pancreas	Pancrea
8	chr9:79032000-79032800	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr9:79032000-79032800	Enhancers	iPS-20b Cell Line	embryonic stem cell
10	chr9:79032200-79032400	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
11	chr9:79032200-79032400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr9:79032200-79032600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
13	chr9:79032200-79033000	Enhancers	Primary T cells from cord blood	blood
14	chr9:79032200-79033400	Enhancers	ES-I3 Cell Line	embryonic stem cell
15	chr9:79032200-79033600	Enhancers	HUES6 Cell Line	embryonic stem cell
16	chr9:79032200-79033800	Enhancers	HUES48 Cell Line	embryonic stem cell
17	chr9:79032200-79033800	Enhancers	HepG2	liver

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