Variant report

Variant	rs9862469
Chromosome Location	chr3:43059236-43059237
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 74 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs10470680	1.00[ASN][1000 genomes]
rs12629332	1.00[CHB][hapmap]
rs1392319	1.00[CHB][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1403525	1.00[CEU][hapmap];1.00[CHB][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17074894	1.00[ASN][1000 genomes]
rs17391070	0.81[EUR][1000 genomes]
rs1816227	1.00[ASN][1000 genomes]
rs28378297	1.00[ASN][1000 genomes]
rs28601753	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28655956	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28673478	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3915020	1.00[ASN][1000 genomes]
rs489117	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs530842	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs534284	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs551658	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs604393	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs61004728	1.00[ASN][1000 genomes]
rs617014	1.00[ASN][1000 genomes]
rs62247128	0.81[EUR][1000 genomes]
rs62248962	1.00[ASN][1000 genomes]
rs62249006	1.00[ASN][1000 genomes]
rs62249007	1.00[ASN][1000 genomes]
rs62249008	1.00[ASN][1000 genomes]
rs62249009	1.00[ASN][1000 genomes]
rs62249011	1.00[ASN][1000 genomes]
rs62249013	1.00[ASN][1000 genomes]
rs62249014	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62249015	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs62249016	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62249584	0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs651899	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6763762	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6773223	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6775999	1.00[ASN][1000 genomes]
rs678310	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6798412	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs680967	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs681341	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs6865	1.00[ASN][1000 genomes]
rs73075297	1.00[ASN][1000 genomes]
rs73075301	1.00[ASN][1000 genomes]
rs73077208	1.00[ASN][1000 genomes]
rs73077214	1.00[ASN][1000 genomes]
rs73077238	1.00[ASN][1000 genomes]
rs735320	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs73832423	1.00[ASN][1000 genomes]
rs73832424	1.00[ASN][1000 genomes]
rs7617715	1.00[ASN][1000 genomes]
rs7641452	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7643433	0.85[YRI][hapmap]
rs7644923	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9311330	1.00[ASN][1000 genomes]
rs9311331	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9311332	0.84[YRI][hapmap]
rs9808932	1.00[ASN][1000 genomes]
rs9815609	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9816391	1.00[CHB][hapmap];0.83[YRI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9824700	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9828785	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9833284	1.00[ASN][1000 genomes]
rs9837761	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9840349	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9852930	1.00[ASN][1000 genomes]
rs9858270	1.00[ASN][1000 genomes]
rs9865715	1.00[CHB][hapmap]
rs9870478	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv460522	chr3:42967597-43175207	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv590149	chr3:42967597-43175207	Flanking Active TSS ZNF genes & repeats Enhancers Weak transcription Bivalent/Poised TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv460523	chr3:43025986-43063406	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv590150	chr3:43025986-43063406	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv432417	chr3:43045796-43098296	ZNF genes & repeats Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv18139	chr3:43053229-43059805	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a
7	esv3395372	chr3:43056498-43059296	Weak transcription ZNF genes & repeats Enhancers	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:43053200-43060600	ZNF genes & repeats	Primary Natural Killer cells fromperipheralblood	blood
2	chr3:43053400-43059400	ZNF genes & repeats	Primary T cells fromperipheralblood	blood
3	chr3:43053600-43073200	Weak transcription	Right Atrium	heart
4	chr3:43054600-43061600	Weak transcription	Stomach Smooth Muscle	stomach
5	chr3:43058000-43059600	ZNF genes & repeats	Fetal Intestine Small	intestine
6	chr3:43058400-43059800	Weak transcription	Primary T helper cells PMA-I stimulated	--
7	chr3:43058400-43061400	Weak transcription	Primary T cells from cord blood	blood
8	chr3:43058600-43061000	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr3:43058800-43059800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr3:43058800-43060200	Weak transcription	Thymus	Thymus
11	chr3:43058800-43060600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
12	chr3:43058800-43061000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr3:43058800-43061400	Weak transcription	Dnd41	blood
14	chr3:43059000-43059400	Enhancers	Esophagus	oesophagus
15	chr3:43059200-43059600	ZNF genes & repeats	Lung	lung

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