Variant report

Variant	rs1699005
Chromosome Location	chr6:38587061-38587062
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10807198	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10947752	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1321056	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs1699001	0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1699002	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1699003	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1699004	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1699007	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1699017	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1739621	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1739626	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1739628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1739629	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1739630	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1739632	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1781708	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1781711	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1781712	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1781738	0.81[EUR][1000 genomes]
rs1852979	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2144328	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2252550	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2748172	0.85[EUR][1000 genomes]
rs2814894	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs6458059	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs910516	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9394521	0.86[AMR][1000 genomes];0.94[EUR][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	chr6:38572000-38591600	Weak transcription	Fetal Intestine Small	intestine
3	chr6:38580600-38600200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:38580600-38601800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr6:38580800-38589400	Weak transcription	Right Atrium	heart
6	chr6:38580800-38594000	Weak transcription	Small Intestine	intestine
7	chr6:38580800-38604400	Weak transcription	Ovary	ovary
8	chr6:38582200-38587200	Weak transcription	Psoas Muscle	Psoas
9	chr6:38582600-38587200	Weak transcription	Right Ventricle	heart
10	chr6:38583000-38599200	Weak transcription	Primary B cells from peripheral blood	blood
11	chr6:38583400-38600400	Weak transcription	Left Ventricle	heart
12	chr6:38583800-38602000	Weak transcription	Primary T cells from cord blood	blood
13	chr6:38585200-38588600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr6:38585600-38587600	Enhancers	HUES64 Cell Line	embryonic stem cell
15	chr6:38585800-38587200	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr6:38585800-38587200	Enhancers	iPS-18 Cell Line	embryonic stem cell
17	chr6:38585800-38587400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr6:38585800-38587400	Enhancers	Fetal Heart	heart
19	chr6:38585800-38587600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr6:38585800-38588200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr6:38586200-38587600	Enhancers	Osteobl	bone
22	chr6:38586400-38587200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
23	chr6:38586400-38587200	Weak transcription	HSMMtube	muscle
24	chr6:38586800-38587200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
25	chr6:38586800-38587400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr6:38587000-38587200	Enhancers	Fetal Intestine Large	intestine

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