Variant report

Variant	rs10084802
Chromosome Location	chr4:20746450-20746451
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10017693	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs10018931	0.90[AFR][1000 genomes]
rs10022322	0.89[ASW][hapmap];0.91[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs10024002	0.94[ASW][hapmap];0.91[GIH][hapmap];0.98[LWK][hapmap];0.98[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.90[AFR][1000 genomes]
rs10025286	0.86[AFR][1000 genomes]
rs10034054	0.90[AFR][1000 genomes]
rs10805219	0.95[AFR][1000 genomes];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10938801	0.82[YRI][hapmap]
rs11941041	0.87[AFR][1000 genomes]
rs11944886	0.89[AFR][1000 genomes]
rs12152652	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12331966	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs12641748	0.86[CHB][hapmap]
rs12644782	1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs12650007	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs16869886	0.86[AFR][1000 genomes]
rs16869889	0.89[AFR][1000 genomes]
rs1985322	0.88[ASW][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.89[TSI][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs2052775	1.00[YRI][hapmap];0.89[AFR][1000 genomes]
rs2114472	0.88[AFR][1000 genomes]
rs2114473	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes]
rs2162413	1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[ASN][1000 genomes]
rs2288308	0.89[ASW][hapmap];0.80[CEU][hapmap];0.89[GIH][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.87[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs2322688	0.94[ASW][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.84[TSI][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28524474	0.90[AFR][1000 genomes]
rs28637181	0.99[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs28714128	0.94[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs28788006	0.86[AFR][1000 genomes]
rs3764964	0.94[ASW][hapmap];0.98[LWK][hapmap];0.98[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs3764965	0.89[YRI][hapmap]
rs3764966	1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs3815872	0.90[AFR][1000 genomes]
rs3816874	0.83[YRI][hapmap]
rs4414951	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs4431223	0.98[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs4510461	0.89[AFR][1000 genomes]
rs4640668	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55847423	1.00[ASN][1000 genomes]
rs57740160	0.93[AFR][1000 genomes];0.81[AMR][1000 genomes]
rs59335491	0.88[AFR][1000 genomes]
rs62410159	0.96[AFR][1000 genomes];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs6447974	0.89[AFR][1000 genomes]
rs6447975	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6447976	0.80[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs6447978	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.91[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.87[TSI][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6447982	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.94[AFR][1000 genomes];0.83[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs6811030	0.89[ASW][hapmap];0.80[CEU][hapmap];1.00[LWK][hapmap];0.98[MKK][hapmap];0.86[TSI][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs6811505	0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs6817475	0.91[AFR][1000 genomes]
rs6831295	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6831516	0.80[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.98[LWK][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7438098	0.81[AFR][1000 genomes]
rs7655154	0.88[ASW][hapmap];0.91[GIH][hapmap];0.98[LWK][hapmap];0.97[MKK][hapmap];0.89[TSI][hapmap];0.93[YRI][hapmap];0.89[AFR][1000 genomes]
rs7660006	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7666288	0.85[YRI][hapmap];0.90[AFR][1000 genomes]
rs7673805	0.89[AFR][1000 genomes]
rs7674453	0.90[AFR][1000 genomes]
rs7681691	0.88[CHB][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes]
rs7685481	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7689421	0.80[YRI][hapmap]
rs7694208	0.80[YRI][hapmap]
rs7696618	0.89[AFR][1000 genomes]
rs990206	0.90[YRI][hapmap];0.93[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs9995438	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9995697	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1010145	chr4:20601908-21057992	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv537052	chr4:20601908-21057992	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv1014941	chr4:20611726-21345226	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv537053	chr4:20611726-21345226	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
5	nsv829876	chr4:20638736-20835621	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv869522	chr4:20724433-20938248	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:20725000-20753000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
2	chr4:20730600-20757600	Weak transcription	HSMM	muscle
3	chr4:20732600-20758400	Weak transcription	Brain Angular Gyrus	brain
4	chr4:20736000-20747800	Weak transcription	Brain Cingulate Gyrus	brain
5	chr4:20739200-20748200	Weak transcription	Psoas Muscle	Psoas
6	chr4:20739200-20761200	Weak transcription	Fetal Heart	heart
7	chr4:20739600-20755200	Weak transcription	K562	blood
8	chr4:20740200-20755200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr4:20740600-20754800	Weak transcription	Dnd41	blood
10	chr4:20740600-20756600	Weak transcription	Rectal Mucosa Donor 29	rectum
11	chr4:20740600-20757200	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr4:20740600-20763600	Weak transcription	Brain Anterior Caudate	brain
13	chr4:20740800-20750800	Weak transcription	Stomach Smooth Muscle	stomach
14	chr4:20740800-20751400	Weak transcription	Pancreas	Pancrea
15	chr4:20740800-20756000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr4:20740800-20757200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr4:20740800-20757600	Weak transcription	Rectal Smooth Muscle	rectum
18	chr4:20740800-20763600	Weak transcription	HSMMtube	muscle
19	chr4:20740800-20770600	Weak transcription	Brain Inferior Temporal Lobe	brain
20	chr4:20740800-20791200	Weak transcription	Ovary	ovary
21	chr4:20741000-20749200	Weak transcription	Fetal Stomach	stomach
22	chr4:20741000-20753600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr4:20741000-20757800	Weak transcription	Sigmoid Colon	Sigmoid Colon
24	chr4:20741600-20754200	Weak transcription	Fetal Lung	lung
25	chr4:20741600-20756200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr4:20741800-20757400	Weak transcription	Primary T cells from cord blood	blood
27	chr4:20744600-20749200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr4:20745600-20757600	Weak transcription	NHEK	skin
29	chr4:20746400-20746800	ZNF genes & repeats	Left Ventricle	heart

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