Variant report

Variant	rs616584
Chromosome Location	chr9:15188598-15188599
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:15178556..15180974-chr9:15188192..15191171,2	MCF-7	breast:

Extended variants
information (count: 14 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs2186027	0.87[YRI][hapmap]
rs2761114	0.85[YRI][hapmap]
rs2800589	0.81[AFR][1000 genomes]
rs2800592	1.00[YRI][hapmap];0.96[AFR][1000 genomes]
rs4237137	0.87[YRI][hapmap]
rs486612	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs508190	1.00[AFR][1000 genomes]
rs566479	1.00[AFR][1000 genomes]
rs581963	0.85[YRI][hapmap];1.00[AFR][1000 genomes]
rs599999	1.00[AFR][1000 genomes]
rs613899	1.00[YRI][hapmap];1.00[AFR][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:97 , 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	chr9:15156800-15190400	Weak transcription	Brain Anterior Caudate	brain
3	chr9:15156800-15211800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr9:15159000-15211200	Weak transcription	HMEC	breast
5	chr9:15159200-15205800	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr9:15162800-15193000	Weak transcription	Spleen	Spleen
7	chr9:15163000-15233000	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr9:15166200-15211200	Weak transcription	NH-A	brain
9	chr9:15167000-15196400	Weak transcription	Psoas Muscle	Psoas
10	chr9:15167400-15189000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr9:15167400-15205600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr9:15167800-15193400	Strong transcription	Primary T cells fromperipheralblood	blood
13	chr9:15167800-15196200	Weak transcription	Fetal Muscle Trunk	muscle
14	chr9:15168000-15196800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr9:15168200-15206800	Weak transcription	NHEK	skin
16	chr9:15169000-15193400	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr9:15169200-15196600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr9:15170400-15211000	Weak transcription	Brain Angular Gyrus	brain
19	chr9:15170800-15189400	Weak transcription	Osteobl	bone
20	chr9:15171000-15228600	Weak transcription	Stomach Mucosa	stomach
21	chr9:15172600-15192800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
22	chr9:15173000-15194400	Weak transcription	Brain Hippocampus Middle	brain
23	chr9:15173000-15196000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
24	chr9:15174800-15193000	Weak transcription	Fetal Thymus	thymus
25	chr9:15175200-15193400	Weak transcription	HSMM	muscle
26	chr9:15176000-15194400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
27	chr9:15176200-15197000	Weak transcription	HSMMtube	muscle
28	chr9:15177000-15191600	Weak transcription	Brain Cingulate Gyrus	brain
29	chr9:15177000-15213000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
30	chr9:15178400-15191400	Strong transcription	Primary T helper cells PMA-I stimulated	--
31	chr9:15178600-15193200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr9:15178600-15193400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
33	chr9:15178800-15193200	Strong transcription	Rectal Mucosa Donor 29	rectum
34	chr9:15179400-15221000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
35	chr9:15179800-15191400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr9:15180000-15192800	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
37	chr9:15180400-15197400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
38	chr9:15181000-15193400	Weak transcription	Right Ventricle	heart
39	chr9:15181000-15211800	Weak transcription	NHLF	lung
40	chr9:15182000-15211400	Weak transcription	Colon Smooth Muscle	Colon
41	chr9:15182200-15191600	Weak transcription	Fetal Muscle Leg	muscle
42	chr9:15182200-15211400	Weak transcription	Rectal Smooth Muscle	rectum
43	chr9:15182200-15229200	Weak transcription	Gastric	stomach
44	chr9:15182400-15195200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
45	chr9:15182400-15205200	Weak transcription	Thymus	Thymus
46	chr9:15183400-15197000	Strong transcription	Duodenum Mucosa	Duodenum
47	chr9:15183600-15191400	Strong transcription	Primary T cells from cord blood	blood
48	chr9:15183800-15193200	Strong transcription	HepG2	liver
49	chr9:15184000-15190400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr9:15184000-15205400	Weak transcription	HUVEC	blood vessel

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