Variant report

Variant	rs17338506
Chromosome Location	chr3:100607281-100607282
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:71)

rs_ID	r²[population]
rs1036467	0.87[CEU][hapmap];1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10511181	0.87[CEU][hapmap];1.00[AFR][1000 genomes]
rs13060137	0.87[CEU][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs13072000	1.00[CEU][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13077353	0.85[CEU][hapmap];0.82[EUR][1000 genomes]
rs13079002	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13088524	0.86[CEU][hapmap];1.00[AFR][1000 genomes]
rs13092605	0.88[EUR][1000 genomes]
rs13099053	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13100301	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17284842	0.87[CEU][hapmap];1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17398421	0.85[CEU][hapmap]
rs17398684	0.87[CEU][hapmap];1.00[AFR][1000 genomes]
rs2245266	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2245473	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs2245556	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2576365	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2576369	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2576372	0.84[EUR][1000 genomes]
rs2576377	0.81[CEU][hapmap];0.80[EUR][1000 genomes]
rs2576382	0.87[CEU][hapmap]
rs2576387	0.86[EUR][1000 genomes]
rs2576391	0.87[CEU][hapmap]
rs2595893	0.85[CEU][hapmap]
rs2595894	0.86[CEU][hapmap]
rs2713782	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs2713786	0.85[CEU][hapmap]
rs2713787	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2713788	0.84[EUR][1000 genomes]
rs2713789	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs2713793	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs34275644	1.00[AFR][1000 genomes]
rs34315591	1.00[AFR][1000 genomes];0.80[EUR][1000 genomes]
rs34515751	1.00[AFR][1000 genomes]
rs34565718	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs34645172	1.00[AFR][1000 genomes]
rs34999788	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs35042713	0.83[EUR][1000 genomes]
rs35509049	1.00[AFR][1000 genomes]
rs35517882	1.00[AFR][1000 genomes]
rs35617051	0.86[AFR][1000 genomes]
rs35630894	1.00[AFR][1000 genomes]
rs35999953	0.88[EUR][1000 genomes]
rs36156426	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs36165056	0.88[EUR][1000 genomes]
rs36194526	1.00[AFR][1000 genomes]
rs4060963	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs41273553	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4928096	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs62273925	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs62273927	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62273928	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs62273930	1.00[AFR][1000 genomes]
rs62273935	1.00[AFR][1000 genomes]
rs62275197	1.00[AFR][1000 genomes]
rs62275198	1.00[AFR][1000 genomes]
rs62275199	1.00[AFR][1000 genomes]
rs62275200	1.00[AFR][1000 genomes]
rs62275203	1.00[AFR][1000 genomes]
rs62275204	1.00[AFR][1000 genomes]
rs62277105	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs66852780	1.00[AFR][1000 genomes]
rs67946790	1.00[AFR][1000 genomes]
rs67991823	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs72928364	0.86[EUR][1000 genomes]
rs73137256	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73137276	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73143088	1.00[AFR][1000 genomes]
rs7431835	0.87[CEU][hapmap];0.86[EUR][1000 genomes]
rs9832195	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs9840644	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv514163	chr3:100547342-100670846	Flanking Active TSS Genic enhancers Enhancers Weak transcription Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv931417	chr3:100547347-101183844	Weak transcription Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100594400-100618200	Weak transcription	Rectal Smooth Muscle	rectum
2	chr3:100594600-100616800	Weak transcription	Ovary	ovary
3	chr3:100598600-100612400	Weak transcription	Colon Smooth Muscle	Colon
4	chr3:100599600-100610400	Weak transcription	Fetal Muscle Leg	muscle
5	chr3:100599600-100645400	Weak transcription	Duodenum Smooth Muscle	Duodenum
6	chr3:100599800-100610600	Weak transcription	Fetal Stomach	stomach
7	chr3:100599800-100618200	Weak transcription	Fetal Lung	lung
8	chr3:100600000-100610400	Weak transcription	Stomach Smooth Muscle	stomach
9	chr3:100600200-100610200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr3:100600200-100610400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr3:100602000-100609200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr3:100602200-100610200	Weak transcription	Osteobl	bone
13	chr3:100602200-100616800	Weak transcription	NHDF-Ad	bronchial
14	chr3:100603400-100608000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr3:100604200-100612200	Weak transcription	Psoas Muscle	Psoas
16	chr3:100604200-100617000	Weak transcription	Fetal Muscle Trunk	muscle
17	chr3:100604400-100611200	Weak transcription	HSMMtube	muscle
18	chr3:100604600-100609600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr3:100606600-100612000	Enhancers	Hela-S3	cervix

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