Variant report

Variant	rs16829165
Chromosome Location	chr3:118663904-118663905
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs10212391	0.82[AFR][1000 genomes]
rs2160054	0.83[YRI][hapmap];0.89[AFR][1000 genomes]
rs41523948	0.81[YRI][hapmap];0.83[AFR][1000 genomes]
rs4611809	0.90[AFR][1000 genomes]
rs6785161	0.82[YRI][hapmap];0.85[AFR][1000 genomes]
rs6795523	0.84[AFR][1000 genomes]
rs72966889	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72968610	0.91[AFR][1000 genomes]
rs7629089	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7633584	0.81[YRI][hapmap];0.89[AFR][1000 genomes]
rs7644623	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9817943	0.91[AFR][1000 genomes]
rs9837571	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9854240	0.82[AFR][1000 genomes]
rs9861721	0.83[AFR][1000 genomes]
rs9867214	0.83[YRI][hapmap];0.91[AFR][1000 genomes]
rs9874337	0.89[AFR][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	esv3487859	chr3:118570588-119419623	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
2	esv3487860	chr3:118570588-119419623	Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	61 gene(s)	inside rSNPs	diseases
3	nsv1010475	chr3:118657382-118789714	Enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:34 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:118658000-118668400	Weak transcription	A549	lung
2	chr3:118660800-118664600	Enhancers	Brain Anterior Caudate	brain
3	chr3:118661000-118665600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr3:118661200-118665600	Enhancers	Brain Inferior Temporal Lobe	brain
5	chr3:118661600-118666600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
6	chr3:118661800-118664200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr3:118661800-118665600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr3:118661800-118667000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr3:118662000-118664600	Weak transcription	Brain Germinal Matrix	brain
10	chr3:118662000-118665400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr3:118662000-118666600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr3:118662000-118666800	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr3:118662000-118666800	Weak transcription	Fetal Lung	lung
14	chr3:118662000-118667000	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr3:118662000-118667200	Weak transcription	Brain Angular Gyrus	brain
16	chr3:118662000-118668000	Enhancers	Primary T cells from cord blood	blood
17	chr3:118662000-118679800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr3:118662000-118679800	Weak transcription	Ovary	ovary
19	chr3:118662200-118666800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr3:118662600-118664200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr3:118662600-118665400	Enhancers	Fetal Heart	heart
22	chr3:118662800-118664200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr3:118662800-118666400	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr3:118662800-118666600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr3:118662800-118666600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr3:118662800-118672000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
27	chr3:118662800-118672400	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr3:118663400-118664000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr3:118663400-118664400	Weak transcription	K562	blood
30	chr3:118663400-118664600	Enhancers	Breast Myoepithelial Primary Cells	Breast
31	chr3:118663600-118664400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr3:118663600-118664600	Enhancers	Brain Hippocampus Middle	brain
33	chr3:118663800-118664800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr3:118663800-118665000	Weak transcription	Brain Substantia Nigra	brain

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