Variant report

Variant	rs1602579
Chromosome Location	chr3:46164157-46164158
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:46162316..46164554-chr3:46164815..46166918,2	K562	blood:

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs11130080	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs11130085	0.89[ASN][1000 genomes]
rs11130086	0.90[ASN][1000 genomes]
rs1118879	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11917890	0.89[ASN][1000 genomes]
rs11929281	0.89[ASN][1000 genomes]
rs12485978	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12496322	0.89[ASN][1000 genomes]
rs12629632	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12630101	0.82[JPT][hapmap]
rs12635657	0.81[CHB][hapmap]
rs12637023	0.88[ASN][1000 genomes]
rs12639598	0.82[JPT][hapmap]
rs13060901	0.96[CEU][hapmap];0.81[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes]
rs13065737	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13073861	0.95[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs13077099	0.89[ASN][1000 genomes]
rs13077923	0.93[ASN][1000 genomes]
rs13078053	0.92[ASN][1000 genomes]
rs13082280	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13098271	0.88[EUR][1000 genomes]
rs13434029	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13434336	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1392290	0.96[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs1491959	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1491960	0.81[JPT][hapmap]
rs1546077	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1546078	0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1604069	0.80[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17078577	0.88[ASN][1000 genomes]
rs1909595	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1909596	0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1976366	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1976367	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1994490	0.82[JPT][hapmap]
rs2131091	0.95[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2220678	0.90[ASN][1000 genomes]
rs2373150	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2373151	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2373153	0.91[ASN][1000 genomes]
rs2373154	0.95[CHB][hapmap];0.86[JPT][hapmap];0.87[ASN][1000 genomes]
rs34067839	0.93[ASN][1000 genomes]
rs34906043	0.88[EUR][1000 genomes]
rs35359253	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35435608	0.89[EUR][1000 genomes]
rs35462017	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35567508	0.92[ASN][1000 genomes]
rs35657218	0.89[EUR][1000 genomes]
rs36111470	0.93[ASN][1000 genomes]
rs3733100	0.82[JPT][hapmap]
rs3796375	0.82[JPT][hapmap]
rs3821884	0.82[JPT][hapmap]
rs3851347	0.96[CEU][hapmap];0.83[CHB][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes]
rs4318588	0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682806	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4682809	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4682810	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4683175	0.88[ASN][1000 genomes]
rs4683178	0.89[ASN][1000 genomes]
rs56307311	0.93[ASN][1000 genomes]
rs59521415	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61079448	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441944	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6764042	0.96[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs6776028	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6780163	0.96[CEU][hapmap];0.82[CHB][hapmap];0.86[JPT][hapmap]
rs6784214	0.85[CEU][hapmap];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6794103	0.89[ASN][1000 genomes]
rs6794475	0.91[ASN][1000 genomes]
rs6795629	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6800484	0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6805094	0.83[EUR][1000 genomes]
rs6809381	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs730983	0.81[CHB][hapmap];0.82[JPT][hapmap]
rs737452	0.82[CHB][hapmap];0.82[JPT][hapmap]
rs751552	0.82[JPT][hapmap]
rs751553	0.82[JPT][hapmap]
rs7610518	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7623190	0.81[EUR][1000 genomes]
rs7623460	0.96[CEU][hapmap];0.81[CHB][hapmap];0.86[JPT][hapmap];0.83[EUR][1000 genomes]
rs7631598	0.81[ASN][1000 genomes]
rs7642701	0.89[EUR][1000 genomes]
rs9311386	0.92[ASN][1000 genomes]
rs9311387	0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9637425	0.88[ASN][1000 genomes]
rs9824886	0.86[CEU][hapmap];0.86[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs9849015	0.83[EUR][1000 genomes]
rs9870445	0.92[ASN][1000 genomes]
rs9876587	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9990063	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][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	nsv876734	chr3:45725031-46468467	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	nsv498008	chr3:45733423-46319401	Strong transcription Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 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	chr3:46146800-46164400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr3:46152600-46165200	Weak transcription	Spleen	Spleen
3	chr3:46156800-46168000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr3:46157200-46166600	Weak transcription	Psoas Muscle	Psoas
5	chr3:46157200-46168600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr3:46159600-46165000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr3:46159600-46165000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr3:46159600-46165000	Weak transcription	Adipose Nuclei	Adipose
9	chr3:46159800-46164400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr3:46159800-46165000	Weak transcription	Monocytes-CD14+_RO01746	blood
11	chr3:46160200-46165000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr3:46161400-46169400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:46161800-46165000	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr3:46162400-46164400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
15	chr3:46162800-46165200	Enhancers	Fetal Lung	lung
16	chr3:46162800-46165400	Weak transcription	NHDF-Ad	bronchial
17	chr3:46162800-46168800	Weak transcription	HMEC	breast
18	chr3:46163200-46165200	Weak transcription	Hela-S3	cervix
19	chr3:46163200-46166600	Enhancers	NHLF	lung
20	chr3:46163200-46166800	Enhancers	Fetal Stomach	stomach
21	chr3:46163600-46164400	Weak transcription	Placenta	Placenta
22	chr3:46163600-46165200	Weak transcription	Skeletal Muscle Female	skeletal muscle
23	chr3:46164000-46164200	Flanking Active TSS	Fetal Heart	heart
24	chr3:46164000-46171000	Weak transcription	Skeletal Muscle Male	skeletal muscle

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