Variant report

Variant	rs9820308
Chromosome Location	chr3:69383811-69383812
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11128125	1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];0.85[JPT][hapmap];0.84[LWK][hapmap];0.91[YRI][hapmap];0.86[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs1564758	0.91[ASN][1000 genomes]
rs1976064	0.80[CHB][hapmap];0.87[YRI][hapmap];0.85[ASN][1000 genomes]
rs2003264	0.84[ASN][1000 genomes]
rs2005546	0.80[CHB][hapmap];0.87[YRI][hapmap];0.84[ASN][1000 genomes]
rs2008239	0.92[CHD][hapmap];0.84[LWK][hapmap];0.87[YRI][hapmap];0.85[ASN][1000 genomes]
rs34397489	0.91[ASN][1000 genomes]
rs6549200	0.90[CHB][hapmap];0.94[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.91[YRI][hapmap];0.96[ASN][1000 genomes]
rs6549204	0.90[ASN][1000 genomes]
rs6763080	0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6774290	0.92[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];0.85[MEX][hapmap];1.00[TSI][hapmap];0.86[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6781841	0.90[ASN][1000 genomes]
rs6802833	0.91[ASN][1000 genomes]
rs6808107	0.85[ASN][1000 genomes]
rs7610748	0.91[AFR][1000 genomes];0.99[ASN][1000 genomes]
rs7615137	0.92[ASN][1000 genomes]
rs7640281	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9820322	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9844501	0.92[CEU][hapmap];0.81[AMR][1000 genomes]
rs9867072	0.88[ASN][1000 genomes]
rs9869925	0.92[CEU][hapmap];0.80[CHB][hapmap];0.91[YRI][hapmap];0.81[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9872564	0.80[CHB][hapmap]
rs9876410	0.86[ASW][hapmap];0.92[CEU][hapmap];0.90[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[LWK][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9882259	0.90[AFR][1000 genomes];0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv876935	chr3:69307942-69401248	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1007730	chr3:69355932-69730587	Active TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	esv1800315	chr3:69374729-69414587	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69370200-69384000	Weak transcription	Left Ventricle	heart
2	chr3:69372200-69403800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr3:69374800-69388400	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr3:69375000-69384000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:69376400-69388600	Weak transcription	Aorta	Aorta
6	chr3:69376800-69388400	Weak transcription	HSMMtube	muscle
7	chr3:69378400-69390600	Weak transcription	Thymus	Thymus
8	chr3:69378400-69400600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr3:69380400-69387600	Weak transcription	Dnd41	blood
10	chr3:69380600-69387400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr3:69380600-69393200	Weak transcription	HSMM	muscle
12	chr3:69380800-69388000	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr3:69380800-69390600	Weak transcription	Fetal Lung	lung
14	chr3:69381200-69388000	Weak transcription	Primary hematopoietic stem cells	blood
15	chr3:69381200-69388400	Weak transcription	Placenta	Placenta
16	chr3:69381400-69384400	Enhancers	Brain Hippocampus Middle	brain
17	chr3:69381400-69388600	Weak transcription	Spleen	Spleen
18	chr3:69381600-69385200	Weak transcription	NHEK	skin
19	chr3:69381800-69389000	Weak transcription	Lung	lung
20	chr3:69382000-69384600	Enhancers	Brain Cingulate Gyrus	brain
21	chr3:69382400-69384400	Enhancers	Brain Anterior Caudate	brain
22	chr3:69382400-69384800	Enhancers	Brain Substantia Nigra	brain
23	chr3:69382600-69384800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr3:69382800-69384000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr3:69383600-69387200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
26	chr3:69383600-69387800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr3:69383600-69388600	Weak transcription	HUVEC	blood vessel
28	chr3:69383800-69384200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr3:69383800-69384200	Enhancers	Right Ventricle	heart
30	chr3:69383800-69384400	Enhancers	Adipose Nuclei	Adipose
31	chr3:69383800-69384400	Enhancers	Brain Angular Gyrus	brain
32	chr3:69383800-69384400	Enhancers	Fetal Heart	heart
33	chr3:69383800-69384400	Enhancers	Right Atrium	heart

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