Variant report

Variant	rs1739629
Chromosome Location	chr6:38581744-38581745
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10807198	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10947752	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1321056	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1699001	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1699002	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1699003	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1699004	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1699005	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1699007	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1699017	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1739621	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1739626	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1739628	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1739630	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1739632	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1739633	0.92[ASN][1000 genomes]
rs1781708	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1781711	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1781712	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1781738	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1852979	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs2144328	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2252550	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2748172	0.86[EUR][1000 genomes]
rs2814883	0.81[EUR][1000 genomes]
rs2814889	0.80[EUR][1000 genomes]
rs2814894	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4392718	0.80[EUR][1000 genomes]
rs6458059	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs910516	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9394521	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[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	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	nsv534620	chr6:38049585-38602064	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38565400-38589200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
2	chr6:38565800-38583200	Weak transcription	Primary T cells from cord blood	blood
3	chr6:38565800-38583600	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr6:38568200-38584200	Weak transcription	Primary B cells from cord blood	blood
5	chr6:38571600-38581800	Weak transcription	Left Ventricle	heart
6	chr6:38572000-38591600	Weak transcription	Fetal Intestine Small	intestine
7	chr6:38572800-38581800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr6:38578000-38582600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr6:38580600-38581800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
10	chr6:38580600-38582000	Enhancers	Lung	lung
11	chr6:38580600-38600200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr6:38580600-38601800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
13	chr6:38580800-38581800	Weak transcription	Right Ventricle	heart
14	chr6:38580800-38585800	Weak transcription	HUES48 Cell Line	embryonic stem cell
15	chr6:38580800-38589400	Weak transcription	Right Atrium	heart
16	chr6:38580800-38594000	Weak transcription	Small Intestine	intestine
17	chr6:38580800-38604400	Weak transcription	Ovary	ovary
18	chr6:38581000-38585800	Weak transcription	HSMMtube	muscle
19	chr6:38581000-38586200	Weak transcription	Osteobl	bone
20	chr6:38581200-38585800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr6:38581400-38581800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr6:38581400-38581800	Enhancers	NHDF-Ad	bronchial
23	chr6:38581400-38585800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr6:38581600-38581800	Enhancers	Brain Cingulate Gyrus	brain
25	chr6:38581600-38582200	Enhancers	Psoas Muscle	Psoas
26	chr6:38581600-38582400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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