Variant report

Variant	rs11759828
Chromosome Location	chr6:15292396-15292397
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:15288261..15289953-chr6:15290312..15293212,2	K562	blood:
2	chr6:15268694..15271371-chr6:15290123..15292738,2	K562	blood:
3	chr6:15287052..15289953-chr6:15290312..15293224,4	K562	blood:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs10949291	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10949292	0.85[ASN][1000 genomes]
rs10949293	0.80[ASN][1000 genomes]
rs10949295	0.85[AMR][1000 genomes]
rs11759847	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12192599	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198694	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12199895	0.80[ASN][1000 genomes]
rs12201889	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12204124	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12205420	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12206745	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12209228	0.90[ASN][1000 genomes]
rs12209453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12209539	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12209748	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs12210592	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12212013	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12214719	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes]
rs12215596	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12215740	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17575737	0.85[AMR][1000 genomes]
rs17619838	0.86[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17637773	0.85[AMR][1000 genomes]
rs17687211	0.93[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs17713010	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs28505073	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs55634912	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55980198	0.90[ASN][1000 genomes]
rs6902997	0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6919296	0.85[ASN][1000 genomes]
rs6935879	0.85[ASN][1000 genomes]
rs6938919	0.80[ASN][1000 genomes]
rs72834551	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs72834590	0.93[AMR][1000 genomes]
rs7765425	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027010	chr6:15201803-15425629	Flanking Active TSS Enhancers Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv538140	chr6:15217899-15547127	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv1030558	chr6:15234675-15449137	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
4	nsv538141	chr6:15234675-15509163	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv538142	chr6:15243960-15404893	Weak transcription Enhancers Flanking Active TSS Genic enhancers Active TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
6	nsv601006	chr6:15275305-15300590	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
7	nsv949448	chr6:15279490-15449441	Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
8	nsv1025512	chr6:15291551-15452395	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
9	nsv538143	chr6:15291551-15452395	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:104 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:15276800-15293200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr6:15277200-15294000	Weak transcription	Fetal Muscle Leg	muscle
3	chr6:15280200-15293800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr6:15281400-15293400	Weak transcription	Esophagus	oesophagus
5	chr6:15281400-15296400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
6	chr6:15281600-15294000	Weak transcription	Duodenum Smooth Muscle	Duodenum
7	chr6:15281800-15293400	Weak transcription	Cortex derived primary cultured neurospheres	brain
8	chr6:15281800-15300200	Weak transcription	Fetal Stomach	stomach
9	chr6:15282400-15299400	Weak transcription	Fetal Intestine Small	intestine
10	chr6:15282600-15296400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr6:15285200-15296000	Weak transcription	Liver	Liver
12	chr6:15285200-15296400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr6:15285200-15299400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr6:15285200-15299400	Weak transcription	A549	lung
15	chr6:15285800-15299400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr6:15285800-15299800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr6:15286200-15296200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
18	chr6:15286400-15293600	Weak transcription	HSMMtube	muscle
19	chr6:15286400-15299400	Weak transcription	NHEK	skin
20	chr6:15286400-15299600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:15286800-15299200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:15288400-15292800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr6:15288400-15293200	Weak transcription	Primary T cells from cord blood	blood
24	chr6:15288400-15293400	Weak transcription	Pancreas	Pancrea
25	chr6:15288400-15293800	Weak transcription	Brain Germinal Matrix	brain
26	chr6:15288600-15293200	Weak transcription	Thymus	Thymus
27	chr6:15288800-15299000	Weak transcription	Rectal Mucosa Donor 29	rectum
28	chr6:15288800-15299600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
29	chr6:15289000-15299200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr6:15289200-15292600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
31	chr6:15289200-15293200	Weak transcription	Colon Smooth Muscle	Colon
32	chr6:15289400-15292800	Weak transcription	Left Ventricle	heart
33	chr6:15289400-15293000	Weak transcription	H1 Cell Line	embryonic stem cell
34	chr6:15289400-15293000	Weak transcription	Primary B cells from peripheral blood	blood
35	chr6:15289400-15293200	Weak transcription	Brain Substantia Nigra	brain
36	chr6:15289400-15293400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
37	chr6:15289400-15293400	Weak transcription	Primary B cells from cord blood	blood
38	chr6:15289400-15293400	Weak transcription	Brain Angular Gyrus	brain
39	chr6:15289400-15293400	Weak transcription	Brain Cingulate Gyrus	brain
40	chr6:15289400-15293400	Weak transcription	Gastric	stomach
41	chr6:15289400-15293400	Weak transcription	Stomach Mucosa	stomach
42	chr6:15289400-15293800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
43	chr6:15289400-15294600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
44	chr6:15289400-15295000	Enhancers	iPS-15b Cell Line	embryonic stem cell
45	chr6:15289400-15296000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
46	chr6:15289600-15299400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr6:15290000-15293000	Weak transcription	Right Atrium	heart
48	chr6:15290000-15293400	Weak transcription	Lung	lung
49	chr6:15290000-15294000	Weak transcription	Primary neutrophils fromperipheralblood	blood
50	chr6:15290000-15296000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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