Variant report

Variant	rs62277105
Chromosome Location	chr3:100601089-100601090
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:100595522..100598378-chr3:100600055..100603377,3	MCF-7	breast:

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:65)

rs_ID	r²[population]
rs1036467	1.00[AFR][1000 genomes];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10511181	1.00[AFR][1000 genomes]
rs13060137	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs13072000	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs13077353	0.82[EUR][1000 genomes]
rs13079002	0.86[EUR][1000 genomes]
rs13088524	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	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17338506	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17398684	1.00[AFR][1000 genomes]
rs2245266	0.88[EUR][1000 genomes]
rs2245473	0.89[EUR][1000 genomes]
rs2245556	0.88[EUR][1000 genomes]
rs2576365	0.88[EUR][1000 genomes]
rs2576369	0.88[EUR][1000 genomes]
rs2576372	0.84[EUR][1000 genomes]
rs2576377	0.80[EUR][1000 genomes]
rs2576387	0.86[EUR][1000 genomes]
rs2713782	0.86[EUR][1000 genomes]
rs2713787	0.88[EUR][1000 genomes]
rs2713788	0.84[EUR][1000 genomes]
rs2713789	0.88[EUR][1000 genomes]
rs2713793	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	0.88[EUR][1000 genomes]
rs41273553	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs4928096	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]
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	0.86[EUR][1000 genomes]
rs9832195	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:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100583800-100603400	Weak transcription	Fetal Muscle Trunk	muscle
2	chr3:100593200-100601600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr3:100594400-100618200	Weak transcription	Rectal Smooth Muscle	rectum
4	chr3:100594600-100616800	Weak transcription	Ovary	ovary
5	chr3:100598600-100602200	Enhancers	NHDF-Ad	bronchial
6	chr3:100598600-100612400	Weak transcription	Colon Smooth Muscle	Colon
7	chr3:100599200-100602200	Enhancers	Osteobl	bone
8	chr3:100599200-100603400	Weak transcription	HSMMtube	muscle
9	chr3:100599600-100601600	Weak transcription	Psoas Muscle	Psoas
10	chr3:100599600-100602600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr3:100599600-100610400	Weak transcription	Fetal Muscle Leg	muscle
12	chr3:100599600-100645400	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr3:100599800-100602400	Enhancers	Hela-S3	cervix
14	chr3:100599800-100610600	Weak transcription	Fetal Stomach	stomach
15	chr3:100599800-100618200	Weak transcription	Fetal Lung	lung
16	chr3:100600000-100602000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr3:100600000-100610400	Weak transcription	Stomach Smooth Muscle	stomach
18	chr3:100600200-100601600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
19	chr3:100600200-100601800	Weak transcription	Adipose Nuclei	Adipose
20	chr3:100600200-100610200	Weak transcription	Muscle Satellite Cultured Cells	--
21	chr3:100600200-100610400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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