Variant report

Variant	rs4928093
Chromosome Location	chr3:100601751-100601752
allele	A/C
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: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1017439	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1370160	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.96[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1370161	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1436941	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1816567	0.89[CEU][hapmap];0.86[GIH][hapmap];0.92[TSI][hapmap];0.89[EUR][1000 genomes]
rs1821794	0.89[CEU][hapmap];0.86[GIH][hapmap];0.85[TSI][hapmap];0.89[EUR][1000 genomes]
rs1836986	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1836987	0.87[EUR][1000 genomes]
rs1836988	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1987384	0.86[CHB][hapmap];0.82[CHD][hapmap];0.81[MKK][hapmap]
rs2083008	0.86[CHB][hapmap]
rs2083009	0.83[CHB][hapmap];0.91[YRI][hapmap];0.93[AFR][1000 genomes]
rs2118172	0.94[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.89[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2317331	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3821725	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];0.93[MEX][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4328836	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4928058	0.86[CHB][hapmap];0.82[CHD][hapmap]
rs4928094	0.86[CHB][hapmap];0.82[CHD][hapmap];0.84[LWK][hapmap]
rs4928095	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6441555	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6778625	0.89[CEU][hapmap];0.86[GIH][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes]
rs6786325	1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.81[MKK][hapmap];0.96[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6786332	1.00[CEU][hapmap];0.92[CHB][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6793103	0.89[EUR][1000 genomes]
rs9290245	0.89[CEU][hapmap];0.85[TSI][hapmap];0.89[EUR][1000 genomes]
rs975536	0.94[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.89[TSI][hapmap];0.91[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9878937	0.84[CEU][hapmap];0.86[GIH][hapmap];0.80[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:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:100583800-100603400	Weak transcription	Fetal Muscle Trunk	muscle
2	chr3:100594400-100618200	Weak transcription	Rectal Smooth Muscle	rectum
3	chr3:100594600-100616800	Weak transcription	Ovary	ovary
4	chr3:100598600-100602200	Enhancers	NHDF-Ad	bronchial
5	chr3:100598600-100612400	Weak transcription	Colon Smooth Muscle	Colon
6	chr3:100599200-100602200	Enhancers	Osteobl	bone
7	chr3:100599200-100603400	Weak transcription	HSMMtube	muscle
8	chr3:100599600-100602600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr3:100599600-100610400	Weak transcription	Fetal Muscle Leg	muscle
10	chr3:100599600-100645400	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr3:100599800-100602400	Enhancers	Hela-S3	cervix
12	chr3:100599800-100610600	Weak transcription	Fetal Stomach	stomach
13	chr3:100599800-100618200	Weak transcription	Fetal Lung	lung
14	chr3:100600000-100602000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr3:100600000-100610400	Weak transcription	Stomach Smooth Muscle	stomach
16	chr3:100600200-100601800	Weak transcription	Adipose Nuclei	Adipose
17	chr3:100600200-100610200	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr3:100600200-100610400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:100601400-100601800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
20	chr3:100601400-100601800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr3:100601400-100602000	Enhancers	HUVEC	blood vessel
22	chr3:100601400-100602200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr3:100601400-100602400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
24	chr3:100601600-100601800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
25	chr3:100601600-100602000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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