Variant report

Variant	rs11758900
Chromosome Location	chr6:25004725-25004726
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10806997	0.82[EUR][1000 genomes]
rs10946739	0.81[ASN][1000 genomes]
rs10946741	0.90[EUR][1000 genomes]
rs10946742	0.82[EUR][1000 genomes]
rs12194111	0.84[ASN][1000 genomes]
rs12205717	0.82[ASN][1000 genomes]
rs1410689	0.83[EUR][1000 genomes]
rs1536768	0.83[EUR][1000 genomes]
rs2183067	0.90[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4712878	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs62401116	0.84[ASN][1000 genomes]
rs6922006	0.88[EUR][1000 genomes]
rs7748247	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7753740	0.87[ASN][1000 genomes]
rs983223	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022966	chr6:24763776-25154212	Flanking Active TSS Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv538160	chr6:24763776-25154212	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv883482	chr6:24926730-25035920	Enhancers Active TSS Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
4	nsv1023989	chr6:24930362-25285679	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Flanking Active TSS 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	43 gene(s)	inside rSNPs	diseases
5	nsv1030634	chr6:24938277-25040161	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
6	nsv830610	chr6:24951741-25124239	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24992200-25006800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr6:24995600-25006800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr6:24995800-25006400	Weak transcription	Thymus	Thymus
4	chr6:24997600-25006400	Weak transcription	Hela-S3	cervix
5	chr6:24997800-25016600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr6:24998200-25006800	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr6:24998200-25009200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr6:24998400-25006400	Weak transcription	Dnd41	blood
9	chr6:24999200-25006600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr6:25000600-25004800	Weak transcription	HMEC	breast
11	chr6:25000600-25006800	Weak transcription	Lung	lung
12	chr6:25000600-25007800	Weak transcription	Spleen	Spleen
13	chr6:25002200-25006400	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr6:25002400-25004800	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
15	chr6:25002400-25005200	Enhancers	Primary neutrophils fromperipheralblood	blood
16	chr6:25002600-25005000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr6:25002600-25005400	Enhancers	Colon Smooth Muscle	Colon
18	chr6:25003200-25004800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr6:25003200-25004800	Weak transcription	NHEK	skin
20	chr6:25003200-25006200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr6:25003200-25006200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:25003200-25006400	Weak transcription	Primary B cells from peripheral blood	blood
23	chr6:25003200-25006400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr6:25003200-25006400	Weak transcription	Stomach Mucosa	stomach
25	chr6:25003200-25006600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
26	chr6:25003200-25006800	Weak transcription	Left Ventricle	heart
27	chr6:25003200-25006800	Weak transcription	Pancreas	Pancrea
28	chr6:25003200-25006800	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr6:25003200-25006800	Weak transcription	NHDF-Ad	bronchial
30	chr6:25003200-25007000	Weak transcription	Esophagus	oesophagus
31	chr6:25003200-25007000	Weak transcription	Rectal Mucosa Donor 29	rectum
32	chr6:25003400-25005400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr6:25003400-25006600	Weak transcription	Fetal Lung	lung
34	chr6:25003400-25006800	Weak transcription	Adipose Nuclei	Adipose
35	chr6:25003400-25007800	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr6:25003600-25005600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
37	chr6:25003800-25005800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
38	chr6:25003800-25006800	Enhancers	Primary T cells from cord blood	blood
39	chr6:25004000-25006800	Enhancers	Primary T helper naive cells from peripheral blood	blood
40	chr6:25004200-25004800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr6:25004200-25005000	Enhancers	HUVEC	blood vessel
42	chr6:25004200-25005600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
43	chr6:25004200-25005800	Enhancers	Placenta Amnion	Placenta Amnion
44	chr6:25004200-25006800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr6:25004200-25007000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
46	chr6:25004200-25011200	Enhancers	Primary monocytes fromperipheralblood	blood
47	chr6:25004400-25005400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr6:25004400-25005400	Enhancers	Brain Germinal Matrix	brain
49	chr6:25004400-25005600	Enhancers	Primary T helper cells fromperipheralblood	blood
50	chr6:25004400-25005600	Enhancers	Primary T killer memory cells from peripheral blood	blood

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