Variant report

Variant	rs583426
Chromosome Location	chr6:80946687-80946688
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10943698	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12209624	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1359239	0.90[CHB][hapmap];0.82[JPT][hapmap];0.87[ASN][1000 genomes]
rs1408292	0.82[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.91[YRI][hapmap];0.84[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1535825	1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[ASN][1000 genomes]
rs1575541	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1892475	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2256531	0.95[CHB][hapmap]
rs2298307	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs2322632	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs2322633	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs2322635	1.00[CHB][hapmap];0.81[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs2476826	0.88[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.88[YRI][hapmap];0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs2490234	1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2490239	0.84[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap]
rs2490241	0.82[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.82[ASN][1000 genomes]
rs2490244	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.83[YRI][hapmap];0.88[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2490245	0.84[CEU][hapmap];0.95[CHB][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2490250	0.88[AFR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2490251	0.84[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2505930	0.81[CHB][hapmap]
rs2505932	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.81[ASN][1000 genomes]
rs2505935	0.82[ASN][1000 genomes]
rs2505939	0.82[ASN][1000 genomes]
rs2505940	0.88[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs2505944	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3805903	0.95[CHB][hapmap]
rs3805911	1.00[CHB][hapmap];0.81[JPT][hapmap];0.91[ASN][1000 genomes]
rs3805913	0.84[CEU][hapmap];1.00[CHB][hapmap];0.80[JPT][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3805919	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3828753	0.84[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4256394	0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4706113	1.00[CHB][hapmap];0.80[JPT][hapmap]
rs590641	0.88[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.89[AFR][1000 genomes];0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs627240	0.85[CEU][hapmap]
rs638056	0.81[CEU][hapmap]
rs643987	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs648831	1.00[YRI][hapmap];0.91[AFR][1000 genomes]
rs668329	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs682482	0.91[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs684251	0.95[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs684283	0.92[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];1.00[YRI][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs686556	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs688867	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6938280	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs742833	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7741013	0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7745301	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7746917	0.85[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7770383	0.88[ASN][1000 genomes]
rs806783	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9294172	0.84[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.90[YRI][hapmap];0.88[AFR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9341808	0.92[ASN][1000 genomes]
rs9343974	1.00[CHB][hapmap];0.80[JPT][hapmap];0.86[ASN][1000 genomes]
rs9343977	0.95[CHB][hapmap];0.89[ASN][1000 genomes]
rs942381	1.00[CHB][hapmap];0.82[ASN][1000 genomes]
rs9448911	0.84[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.88[YRI][hapmap];0.88[AFR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830708	chr6:80844283-80996876	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1034096	chr6:80856135-81150170	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv886309	chr6:80880138-80959885	Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv886310	chr6:80880138-81025879	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv932996	chr6:80880896-81134991	Flanking Active TSS Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv497995	chr6:80883701-81134991	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
7	nsv1033452	chr6:80888667-81000213	Enhancers Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:80914600-80980400	Weak transcription	Ovary	ovary
2	chr6:80915800-80956000	Weak transcription	Brain Substantia Nigra	brain
3	chr6:80920800-80953800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:80921400-80973200	Weak transcription	Primary B cells from cord blood	blood
5	chr6:80922200-80964200	Weak transcription	Fetal Intestine Small	intestine
6	chr6:80924000-80968400	Weak transcription	Gastric	stomach
7	chr6:80924000-80976000	Weak transcription	HSMM	muscle
8	chr6:80927800-80959800	Weak transcription	Aorta	Aorta
9	chr6:80929400-80969200	Weak transcription	Left Ventricle	heart
10	chr6:80932800-80956200	Weak transcription	Lung	lung
11	chr6:80938000-80956800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr6:80938600-80952800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr6:80939000-80974800	Weak transcription	Primary T cells from cord blood	blood
14	chr6:80939200-80959600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
15	chr6:80940600-80964200	Weak transcription	Liver	Liver
16	chr6:80943200-80948000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr6:80944000-80960000	Weak transcription	Psoas Muscle	Psoas
18	chr6:80944000-80982800	Weak transcription	Pancreas	Pancrea
19	chr6:80944400-80953000	Weak transcription	Right Ventricle	heart
20	chr6:80944400-80961600	Weak transcription	Colon Smooth Muscle	Colon
21	chr6:80944600-80977200	Weak transcription	Fetal Stomach	stomach
22	chr6:80945600-80950400	Weak transcription	NHDF-Ad	bronchial
23	chr6:80945800-80956400	Weak transcription	Fetal Heart	heart

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