Variant report

Variant	rs1036699
Chromosome Location	chr9:92765694-92765695
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:92217272..92218834-chr9:92763919..92766631,2	MCF-7	breast:

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10993587	0.96[ASN][1000 genomes]
rs12339520	1.00[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs12350621	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16906012	0.89[CHB][hapmap];1.00[CHD][hapmap];0.88[GIH][hapmap];0.86[JPT][hapmap];0.96[ASN][1000 genomes]
rs16906019	0.89[CHB][hapmap];0.86[JPT][hapmap];0.96[ASN][1000 genomes]
rs16906030	0.96[ASN][1000 genomes]
rs16906038	0.96[ASN][1000 genomes]
rs16906046	0.96[ASN][1000 genomes]
rs2099918	0.96[ASN][1000 genomes]
rs2119293	0.96[ASN][1000 genomes]
rs2890110	0.96[ASN][1000 genomes]
rs497115	1.00[AFR][1000 genomes]
rs57835569	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58400952	0.95[ASN][1000 genomes]
rs602063	1.00[AFR][1000 genomes]
rs603801	1.00[AFR][1000 genomes]
rs60994320	0.96[ASN][1000 genomes]
rs61344087	0.96[ASN][1000 genomes]
rs64161	1.00[AFR][1000 genomes]
rs648329	1.00[AFR][1000 genomes]
rs652913	1.00[ASW][hapmap];0.90[GIH][hapmap];1.00[MKK][hapmap];0.87[TSI][hapmap];1.00[AFR][1000 genomes]
rs72755008	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755009	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755011	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755015	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72755016	0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv893561	chr9:92732368-92802101	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv482303	chr9:92752928-92890226	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1036699	ROR2	cis	parietal	SCAN

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92757400-92770000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr9:92757600-92770000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr9:92758800-92767600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr9:92760800-92766000	Enhancers	Fetal Brain Male	brain
5	chr9:92761200-92767400	Enhancers	Fetal Muscle Leg	muscle
6	chr9:92761600-92765800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr9:92761600-92766400	Enhancers	Fetal Stomach	stomach
8	chr9:92761800-92766600	Enhancers	Cortex derived primary cultured neurospheres	brain
9	chr9:92762400-92766600	Enhancers	Colon Smooth Muscle	Colon
10	chr9:92762600-92765800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr9:92762600-92765800	Enhancers	Fetal Lung	lung
12	chr9:92762600-92766400	Enhancers	Brain Substantia Nigra	brain
13	chr9:92762600-92766400	Enhancers	HSMM	muscle
14	chr9:92762600-92766600	Enhancers	HSMMtube	muscle
15	chr9:92762600-92769600	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr9:92762800-92766000	Enhancers	Primary hematopoietic stem cells	blood
17	chr9:92762800-92769600	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr9:92763000-92766600	Enhancers	Duodenum Smooth Muscle	Duodenum
19	chr9:92763000-92766600	Enhancers	Left Ventricle	heart
20	chr9:92763000-92766600	Enhancers	Pancreas	Pancrea
21	chr9:92763000-92766600	Enhancers	Rectal Smooth Muscle	rectum
22	chr9:92763000-92766800	Enhancers	Skeletal Muscle Female	skeletal muscle
23	chr9:92763000-92768000	Enhancers	Ovary	ovary
24	chr9:92763400-92767200	Weak transcription	Primary B cells from cord blood	blood
25	chr9:92763600-92765800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr9:92763600-92765800	Enhancers	Duodenum Mucosa	Duodenum
27	chr9:92763600-92769800	Weak transcription	Gastric	stomach
28	chr9:92763600-92769800	Weak transcription	NHDF-Ad	bronchial
29	chr9:92763800-92765800	Enhancers	Brain Cingulate Gyrus	brain
30	chr9:92763800-92766600	Enhancers	Fetal Muscle Trunk	muscle
31	chr9:92764200-92766400	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr9:92764200-92766600	Enhancers	Fetal Brain Female	brain
33	chr9:92764200-92771200	Weak transcription	Monocytes-CD14+_RO01746	blood
34	chr9:92764400-92766200	Enhancers	Osteobl	bone
35	chr9:92764400-92766400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
36	chr9:92764600-92766200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr9:92764600-92766400	Enhancers	Adipose Nuclei	Adipose
38	chr9:92764600-92766600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr9:92764800-92765800	Flanking Active TSS	Stomach Smooth Muscle	stomach
40	chr9:92764800-92766000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
41	chr9:92764800-92769800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr9:92765000-92769800	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr9:92765000-92770000	Weak transcription	H1 Cell Line	embryonic stem cell
44	chr9:92765000-92770400	Weak transcription	HUES48 Cell Line	embryonic stem cell
45	chr9:92765200-92766000	Weak transcription	Liver	Liver
46	chr9:92765200-92766200	Weak transcription	Esophagus	oesophagus
47	chr9:92765200-92766200	Weak transcription	Right Ventricle	heart
48	chr9:92765200-92767000	Enhancers	Brain Germinal Matrix	brain
49	chr9:92765200-92767200	Enhancers	Skeletal Muscle Male	skeletal muscle
50	chr9:92765200-92767600	Weak transcription	Placenta	Placenta

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