Variant report

Variant	rs3733988
Chromosome Location	chr5:167674370-167674371
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs10447194	0.81[AMR][1000 genomes]
rs11959012	0.88[ASW][hapmap];0.81[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.87[LWK][hapmap];0.89[MKK][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs1960425	0.88[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6888483	1.00[JPT][hapmap];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534607	chr5:167661667-168454396	Active TSS Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv5117	chr5:167666701-167711857	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv462512	chr5:167672105-167702041	Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv600257	chr5:167672105-167702041	Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 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	chr5:167646800-167695800	Weak transcription	Brain Cingulate Gyrus	brain
2	chr5:167661600-167688200	Weak transcription	HMEC	breast
3	chr5:167666400-167682600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
4	chr5:167667200-167679200	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr5:167668600-167679600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr5:167672200-167695800	Weak transcription	Fetal Heart	heart
7	chr5:167672800-167675800	Weak transcription	Osteobl	bone
8	chr5:167673000-167676800	Weak transcription	Duodenum Mucosa	Duodenum
9	chr5:167673000-167677600	Weak transcription	Liver	Liver
10	chr5:167673000-167678000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr5:167673000-167695600	Weak transcription	Brain Anterior Caudate	brain
12	chr5:167673400-167676400	Weak transcription	Stomach Smooth Muscle	stomach
13	chr5:167673400-167676600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr5:167673400-167677800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr5:167673400-167679200	Strong transcription	NHEK	skin
16	chr5:167673600-167674400	Strong transcription	Fetal Lung	lung
17	chr5:167673600-167674600	Strong transcription	Fetal Brain Male	brain
18	chr5:167673800-167674800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr5:167673800-167675000	Strong transcription	Brain Angular Gyrus	brain
20	chr5:167673800-167675400	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr5:167673800-167675600	Strong transcription	Brain Germinal Matrix	brain
22	chr5:167673800-167675600	Strong transcription	Left Ventricle	heart
23	chr5:167673800-167675600	Strong transcription	Right Ventricle	heart
24	chr5:167673800-167676000	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr5:167673800-167676800	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr5:167673800-167676800	Weak transcription	NHDF-Ad	bronchial
27	chr5:167674000-167674600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr5:167674000-167674800	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
29	chr5:167674000-167675200	Strong transcription	Cortex derived primary cultured neurospheres	brain
30	chr5:167674000-167675400	Strong transcription	Brain Inferior Temporal Lobe	brain
31	chr5:167674000-167675400	Strong transcription	Fetal Brain Female	brain
32	chr5:167674000-167675800	Strong transcription	HSMM	muscle
33	chr5:167674200-167675000	ZNF genes & repeats	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr5:167674200-167675600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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