Variant report

Variant	rs59341107
Chromosome Location	chr6:128569808-128569809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs10485161	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10485162	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10499138	0.90[EUR][1000 genomes]
rs11962916	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11968433	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11970637	0.83[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17053270	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055290	0.90[EUR][1000 genomes]
rs17055300	0.90[EUR][1000 genomes]
rs17055360	0.90[EUR][1000 genomes]
rs17055365	0.90[EUR][1000 genomes]
rs17055403	0.90[EUR][1000 genomes]
rs17055412	0.90[EUR][1000 genomes]
rs17055415	0.90[EUR][1000 genomes]
rs17055421	0.90[EUR][1000 genomes]
rs17055443	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17055445	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs17055461	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055488	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055499	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055501	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17055507	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1738273	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1768358	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1856497	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4131020	0.90[EUR][1000 genomes]
rs4895832	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4897244	0.90[EUR][1000 genomes]
rs4897245	0.90[EUR][1000 genomes]
rs4897246	0.90[EUR][1000 genomes]
rs4897247	0.90[EUR][1000 genomes]
rs4897248	0.90[EUR][1000 genomes]
rs4897249	0.90[EUR][1000 genomes]
rs4897250	0.90[EUR][1000 genomes]
rs55828045	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56042959	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56932458	0.82[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57797601	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58652879	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58706847	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60264538	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs60436012	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61111040	0.84[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6900798	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6905735	0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6909380	0.90[EUR][1000 genomes]
rs6910587	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6913738	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6918772	0.90[EUR][1000 genomes]
rs6929394	0.90[EUR][1000 genomes]
rs6929623	0.90[EUR][1000 genomes]
rs6933133	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6938199	0.90[EUR][1000 genomes]
rs73588698	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73590666	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73592613	0.81[AFR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73592686	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7751187	0.90[EUR][1000 genomes]
rs7754637	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7768121	0.90[EUR][1000 genomes]
rs7772200	0.90[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	nsv1033443	chr6:128306654-128899203	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv538440	chr6:128306654-128899203	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv886649	chr6:128399657-128808054	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:128520400-128573800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr6:128531200-128573800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr6:128537600-128573800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr6:128551400-128584400	Weak transcription	Pancreas	Pancrea
5	chr6:128553200-128573800	Weak transcription	NHLF	lung
6	chr6:128553800-128570600	Weak transcription	Liver	Liver
7	chr6:128555200-128584400	Weak transcription	HMEC	breast
8	chr6:128555600-128595800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
9	chr6:128559600-128570600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr6:128561400-128573000	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr6:128561400-128587000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr6:128561600-128573800	Weak transcription	Thymus	Thymus
13	chr6:128562400-128576600	Weak transcription	Duodenum Mucosa	Duodenum
14	chr6:128562600-128573600	Weak transcription	Primary T cells from cord blood	blood
15	chr6:128562800-128573000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
16	chr6:128562800-128573000	Weak transcription	Aorta	Aorta
17	chr6:128562800-128573800	Weak transcription	Gastric	stomach
18	chr6:128562800-128579800	Weak transcription	Left Ventricle	heart
19	chr6:128562800-128588200	Weak transcription	HUVEC	blood vessel
20	chr6:128563000-128570600	Weak transcription	HSMMtube	muscle
21	chr6:128563000-128573000	Weak transcription	NH-A	brain
22	chr6:128563000-128574000	Weak transcription	HUES64 Cell Line	embryonic stem cell
23	chr6:128563000-128585400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
24	chr6:128564400-128583400	Weak transcription	HepG2	liver
25	chr6:128564400-128588600	Weak transcription	NHEK	skin
26	chr6:128564600-128573800	Weak transcription	Fetal Thymus	thymus
27	chr6:128565000-128573000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr6:128565800-128570800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr6:128566000-128572600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr6:128566400-128579800	Weak transcription	Psoas Muscle	Psoas
31	chr6:128566800-128570000	Weak transcription	HSMM	muscle
32	chr6:128566800-128573000	Weak transcription	Osteobl	bone
33	chr6:128568000-128592000	Weak transcription	Brain Angular Gyrus	brain
34	chr6:128568200-128573000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr6:128568200-128574000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr6:128568200-128574000	Weak transcription	Fetal Heart	heart
37	chr6:128568800-128576800	Weak transcription	Fetal Intestine Small	intestine
38	chr6:128569400-128572800	Weak transcription	Rectal Mucosa Donor 31	rectum
39	chr6:128569400-128576400	Weak transcription	Fetal Intestine Large	intestine

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