Variant report

Variant	rs3853429
Chromosome Location	chr9:15194098-15194099
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs1407977	0.93[YRI][hapmap]
rs2199598	1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4740604	0.82[ASN][1000 genomes]
rs566820	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7046543	1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs7860410	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][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	nsv831519	chr9:15018160-15209127	Weak transcription Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv1031340	chr9:15163004-15332769	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv524381	chr9:15165032-15202417	Strong transcription Weak transcription Enhancers Genic enhancers ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15156600-15194200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr9:15156800-15211800	Weak transcription	Skeletal Muscle Male	skeletal muscle
3	chr9:15159000-15211200	Weak transcription	HMEC	breast
4	chr9:15159200-15205800	Weak transcription	Muscle Satellite Cultured Cells	--
5	chr9:15163000-15233000	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr9:15166200-15211200	Weak transcription	NH-A	brain
7	chr9:15167000-15196400	Weak transcription	Psoas Muscle	Psoas
8	chr9:15167400-15205600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr9:15167800-15196200	Weak transcription	Fetal Muscle Trunk	muscle
10	chr9:15168000-15196800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:15168200-15206800	Weak transcription	NHEK	skin
12	chr9:15169200-15196600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr9:15170400-15211000	Weak transcription	Brain Angular Gyrus	brain
14	chr9:15171000-15228600	Weak transcription	Stomach Mucosa	stomach
15	chr9:15173000-15194400	Weak transcription	Brain Hippocampus Middle	brain
16	chr9:15173000-15196000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
17	chr9:15176000-15194400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
18	chr9:15176200-15197000	Weak transcription	HSMMtube	muscle
19	chr9:15177000-15213000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr9:15179400-15221000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
21	chr9:15180400-15197400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr9:15181000-15211800	Weak transcription	NHLF	lung
23	chr9:15182000-15211400	Weak transcription	Colon Smooth Muscle	Colon
24	chr9:15182200-15211400	Weak transcription	Rectal Smooth Muscle	rectum
25	chr9:15182200-15229200	Weak transcription	Gastric	stomach
26	chr9:15182400-15195200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr9:15182400-15205200	Weak transcription	Thymus	Thymus
28	chr9:15183400-15197000	Strong transcription	Duodenum Mucosa	Duodenum
29	chr9:15184000-15205400	Weak transcription	HUVEC	blood vessel
30	chr9:15184600-15197600	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr9:15185000-15195800	Strong transcription	Liver	Liver
32	chr9:15185200-15194800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
33	chr9:15185600-15225800	Weak transcription	Pancreas	Pancrea
34	chr9:15185800-15194600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr9:15186200-15195600	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr9:15187800-15195400	Weak transcription	Fetal Stomach	stomach
37	chr9:15187800-15200600	Weak transcription	Fetal Intestine Small	intestine
38	chr9:15188000-15194400	Weak transcription	Lung	lung
39	chr9:15188200-15195800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
40	chr9:15188400-15195800	Weak transcription	Pancreatic Islets	Pancreatic Islet
41	chr9:15188400-15202600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr9:15188400-15211400	Weak transcription	Fetal Kidney	kidney
43	chr9:15189200-15194600	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr9:15189800-15194800	Weak transcription	Left Ventricle	heart
45	chr9:15190000-15207000	Weak transcription	Primary B cells from peripheral blood	blood
46	chr9:15190800-15205200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr9:15191800-15211200	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr9:15192000-15194200	Strong transcription	Primary T helper cells PMA-I stimulated	--
49	chr9:15192000-15195000	Weak transcription	Fetal Muscle Leg	muscle
50	chr9:15192200-15194800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--

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