Variant report

Variant	rs17879685
Chromosome Location	chr10:96609752-96609753
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs17878279	1.00[AMR][1000 genomes]
rs17878682	1.00[AMR][1000 genomes]
rs17882646	1.00[AMR][1000 genomes]
rs17883850	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1923375	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3740367	1.00[YRI][hapmap]
rs56710710	1.00[AMR][1000 genomes]
rs56717990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56803012	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56949790	1.00[AMR][1000 genomes]
rs57565992	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57773126	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58138713	1.00[AMR][1000 genomes]
rs58398690	1.00[AMR][1000 genomes]
rs58424017	1.00[AMR][1000 genomes]
rs58573303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59210943	1.00[AMR][1000 genomes]
rs59290197	1.00[AMR][1000 genomes]
rs59393664	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59536673	1.00[AMR][1000 genomes]
rs59636573	1.00[AMR][1000 genomes]
rs59729409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59963179	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60223717	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60998888	1.00[AMR][1000 genomes]
rs61460642	1.00[AMR][1000 genomes]
rs61629168	1.00[AMR][1000 genomes]
rs7900194	1.00[AMR][1000 genomes]
rs9332094	1.00[AMR][1000 genomes]
rs9332109	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332124	1.00[ASW][hapmap];0.83[LWK][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332126	1.00[ASW][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332148	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332193	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332200	0.90[AFR][1000 genomes]
rs9332207	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332233	1.00[ASW][hapmap];0.83[LWK][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332240	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9332243	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv1050653	chr10:96407825-96634161	Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv1037364	chr10:96435433-96634161	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	esv3380017	chr10:96439904-96662339	Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv1046308	chr10:96441300-96633012	Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	esv3344949	chr10:96443874-96666028	Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
7	nsv551955	chr10:96444249-96690371	Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv551956	chr10:96446632-96632253	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	nsv534171	chr10:96453830-96612764	Weak transcription Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv551957	chr10:96454156-96626682	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1035409	chr10:96495177-96832057	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
12	nsv895902	chr10:96500106-96619025	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island	2 gene(s)	inside rSNPs	diseases
13	esv3529538	chr10:96522848-96700018	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	esv3529539	chr10:96522848-96700018	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
15	esv3361914	chr10:96522865-96700024	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
16	nsv523259	chr10:96534584-96693727	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Genic enhancers Active TSS	TF binding region Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
17	nsv1052578	chr10:96538082-96641949	Weak transcription Strong transcription ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases
18	esv3336672	chr10:96543010-96711519	Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
19	nsv1037973	chr10:96563228-96711744	Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
20	nsv1047782	chr10:96581094-96718479	Weak transcription Strong transcription ZNF genes & repeats Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
21	nsv820156	chr10:96604474-96611209	Strong transcription Weak transcription Bivalent/Poised TSS Enhancers	n/a	n/a	inside rSNPs	n/a

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96594200-96609800	Weak transcription	Fetal Intestine Large	intestine
2	chr10:96601200-96617200	Weak transcription	Fetal Intestine Small	intestine
3	chr10:96602800-96639400	Weak transcription	Gastric	stomach
4	chr10:96608800-96615600	Strong transcription	Liver	Liver
5	chr10:96609400-96613400	Strong transcription	Duodenum Mucosa	Duodenum

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