Variant report

Variant	rs12403389
Chromosome Location	chr1:92208764-92208765
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:92197202..92203288-chr1:92206365..92210533,5	K562	blood:
2	chr1:92206771..92209600-chr1:92218197..92220922,3	K562	blood:
3	chr1:92208195..92211012-chr1:92213162..92216237,4	K562	blood:
4	chr1:92207711..92209549-chr1:92218107..92220194,2	K562	blood:
5	chr1:92207551..92212491-chr1:92212891..92216237,4	K562	blood:
6	chr1:92196121..92198991-chr1:92207192..92209304,2	MCF-7	breast:
7	chr1:92196725..92200248-chr1:92206849..92210560,4	K562	blood:

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10783004	0.85[JPT][hapmap]
rs10874915	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs11578802	0.85[JPT][hapmap]
rs11579207	1.00[CHB][hapmap];0.89[CHD][hapmap]
rs11582136	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs11582616	0.80[ASN][1000 genomes]
rs17131544	1.00[CHB][hapmap];0.87[CHD][hapmap]
rs6677523	1.00[CHB][hapmap];0.90[CHD][hapmap]
rs923378	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009560	chr1:91897078-92270781	Enhancers Strong transcription Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1012864	chr1:92067100-92827761	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
3	nsv535029	chr1:92067100-92827761	Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
4	nsv530438	chr1:92091957-92827760	Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
5	nsv1010179	chr1:92140209-92655952	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv535030	chr1:92140209-92655952	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
7	nsv1005917	chr1:92189945-92378683	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:92197000-92215200	Weak transcription	Brain Inferior Temporal Lobe	brain
2	chr1:92197200-92215400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr1:92197600-92230000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr1:92197800-92211000	Weak transcription	Colonic Mucosa	Colon
5	chr1:92198000-92210400	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr1:92198200-92224400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
7	chr1:92198400-92210400	Weak transcription	HUVEC	blood vessel
8	chr1:92199200-92218600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
9	chr1:92199400-92219000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
10	chr1:92201200-92219000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr1:92201400-92217600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr1:92203000-92210400	Weak transcription	Brain Angular Gyrus	brain
13	chr1:92203200-92210200	Weak transcription	Brain Anterior Caudate	brain
14	chr1:92203200-92210400	Weak transcription	Stomach Mucosa	stomach
15	chr1:92203200-92212800	Weak transcription	Spleen	Spleen
16	chr1:92203400-92209400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr1:92203400-92210200	Weak transcription	Fetal Intestine Large	intestine
18	chr1:92204800-92247000	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr1:92205000-92212400	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr1:92205800-92208800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr1:92206200-92212000	Enhancers	Colon Smooth Muscle	Colon
22	chr1:92206200-92212400	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr1:92206200-92213600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
24	chr1:92206400-92208800	Enhancers	Fetal Heart	heart
25	chr1:92206400-92209200	Enhancers	Osteobl	bone
26	chr1:92206400-92209600	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr1:92206400-92209800	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
28	chr1:92206600-92209000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
29	chr1:92206600-92209200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr1:92206600-92209200	Enhancers	Muscle Satellite Cultured Cells	--
31	chr1:92206600-92209400	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr1:92206600-92209400	Enhancers	Left Ventricle	heart
33	chr1:92206800-92209000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
34	chr1:92206800-92209000	Enhancers	Right Ventricle	heart
35	chr1:92206800-92209400	Strong transcription	Placenta	Placenta
36	chr1:92206800-92209400	Enhancers	Pancreas	Pancrea
37	chr1:92207000-92209600	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr1:92207000-92209800	Enhancers	Ovary	ovary
39	chr1:92207200-92209400	Enhancers	Right Atrium	heart
40	chr1:92207200-92210400	Weak transcription	K562	blood
41	chr1:92207400-92209000	Enhancers	Skeletal Muscle Female	skeletal muscle
42	chr1:92207400-92209400	Enhancers	Esophagus	oesophagus
43	chr1:92207400-92210600	Genic enhancers	NHDF-Ad	bronchial
44	chr1:92207600-92208800	Enhancers	Brain Hippocampus Middle	brain
45	chr1:92207600-92208800	Genic enhancers	Lung	lung
46	chr1:92207600-92209200	Genic enhancers	NHLF	lung
47	chr1:92207600-92209400	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr1:92207600-92209400	Genic enhancers	Fetal Muscle Leg	muscle
49	chr1:92207600-92209400	Enhancers	Psoas Muscle	Psoas
50	chr1:92207600-92211400	Enhancers	Skeletal Muscle Male	skeletal muscle

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