Variant report

Variant	rs6441375
Chromosome Location	chr3:161068730-161068731
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	chr3:160992668..160995441-chr3:161067329..161069400,3	MCF-7	breast:

Extended variants
information (count: 107 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:103)

rs_ID	r²[population]
rs1017799	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12486111	1.00[GIH][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes]
rs12486998	1.00[GIH][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes]
rs12487002	0.89[JPT][hapmap];0.82[AMR][1000 genomes]
rs12488127	1.00[GIH][hapmap];0.89[JPT][hapmap];0.82[AMR][1000 genomes]
rs12489004	1.00[CHB][hapmap];0.84[JPT][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12489125	0.81[ASN][1000 genomes]
rs12490149	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs12491623	0.82[AMR][1000 genomes]
rs12494520	0.84[AMR][1000 genomes]
rs12496235	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs13315320	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs13319558	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13319771	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1450518	0.88[JPT][hapmap]
rs16831942	0.81[ASN][1000 genomes]
rs2035499	0.82[AMR][1000 genomes]
rs2306209	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs28451189	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs28704960	0.81[ASN][1000 genomes]
rs28713364	0.88[AMR][1000 genomes]
rs4296611	0.88[JPT][hapmap];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4352387	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4468992	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs4580574	0.88[JPT][hapmap];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4635725	0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs57903480	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs58851337	0.82[AMR][1000 genomes]
rs59368066	0.82[AMR][1000 genomes]
rs59567999	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs59757775	0.83[ASN][1000 genomes]
rs60121330	0.81[ASN][1000 genomes]
rs6441363	0.85[AMR][1000 genomes]
rs6441365	0.88[JPT][hapmap];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6441372	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6762064	1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6774919	0.85[CHD][hapmap];1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6775446	0.91[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6775931	0.91[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.85[LWK][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6778186	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6781086	0.88[AMR][1000 genomes]
rs6782415	0.91[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6782518	0.83[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];1.00[MEX][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6785714	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6787447	0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6787697	0.83[AMR][1000 genomes]
rs6788738	0.88[AMR][1000 genomes]
rs6790805	0.81[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6793980	0.86[AMR][1000 genomes]
rs6794601	0.89[JPT][hapmap]
rs6801664	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6805976	0.88[JPT][hapmap];0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs73017340	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026933	0.90[ASN][1000 genomes]
rs73026967	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026968	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026983	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026987	0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73026989	0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs73878309	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73878323	0.82[AMR][1000 genomes]
rs73878329	0.82[AMR][1000 genomes]
rs7614130	0.82[AMR][1000 genomes]
rs7615833	1.00[CHB][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7615868	0.88[JPT][hapmap];0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs7624791	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7626773	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7629841	0.82[AMR][1000 genomes]
rs7634299	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7651924	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7652624	0.82[CHB][hapmap];0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9290070	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9290071	0.91[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs9812574	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9818470	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9819793	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9822705	1.00[CHB][hapmap];0.88[JPT][hapmap];0.91[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9822916	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9824535	0.81[ASN][1000 genomes]
rs9824805	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9830183	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs9833270	1.00[GIH][hapmap];0.88[JPT][hapmap];0.84[MEX][hapmap];0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9834806	0.85[AMR][1000 genomes]
rs9835530	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9838945	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9841871	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9842290	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9847842	0.82[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.81[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9850455	0.89[JPT][hapmap]
rs9851699	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9855112	0.88[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9855572	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9856742	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9859641	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.90[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9860980	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs9862867	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9871753	1.00[GIH][hapmap];0.88[JPT][hapmap];1.00[MEX][hapmap];0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9872514	0.89[JPT][hapmap]
rs9876077	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9877309	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.84[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs9880536	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs9884100	0.91[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs9985364	0.91[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv931072	chr3:160669567-161159779	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv829770	chr3:160989573-161069223	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv533237	chr3:161019834-161804660	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	91 gene(s)	inside rSNPs	diseases
4	nsv829772	chr3:161047817-161202554	Bivalent Enhancer Bivalent/Poised TSS Enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	88 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:161058200-161072200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr3:161059800-161089200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr3:161060600-161070200	Weak transcription	Esophagus	oesophagus
4	chr3:161064400-161083000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr3:161065400-161069200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr3:161065600-161069000	Enhancers	NHDF-Ad	bronchial
7	chr3:161065800-161068800	Enhancers	NH-A	brain
8	chr3:161065800-161069000	Enhancers	HMEC	breast
9	chr3:161065800-161069200	Enhancers	NHEK	skin
10	chr3:161065800-161069600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr3:161066000-161068800	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr3:161066200-161069400	Enhancers	Hela-S3	cervix
13	chr3:161066600-161068800	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr3:161066600-161069200	Enhancers	Muscle Satellite Cultured Cells	--
15	chr3:161066800-161068800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr3:161067000-161068800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
17	chr3:161067000-161069400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr3:161067200-161069000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr3:161068200-161068800	Enhancers	A549	lung
20	chr3:161068200-161083200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
21	chr3:161068400-161068800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
22	chr3:161068400-161075800	Weak transcription	Stomach Mucosa	stomach
23	chr3:161068400-161083200	Weak transcription	HUES64 Cell Line	embryonic stem cell
24	chr3:161068600-161068800	Enhancers	Thymus	Thymus

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