Variant report

Variant	rs12001575
Chromosome Location	chr9:103106560-103106561
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	chr9:103106359..103108668-chr9:103193186..103195753,2	MCF-7	breast:
2	chr9:103105076..103107773-chr9:103190189..103193187,3	MCF-7	breast:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs11998846	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11999065	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs11999333	1.00[AMR][1000 genomes]
rs11999405	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11999630	1.00[YRI][hapmap]
rs11999759	1.00[AMR][1000 genomes]
rs11999920	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12000423	1.00[AMR][1000 genomes]
rs12000833	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12001165	1.00[AMR][1000 genomes]
rs12001197	1.00[AMR][1000 genomes]
rs12001218	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12003270	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12003337	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12003593	1.00[AMR][1000 genomes]
rs12004561	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs12005084	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12005328	1.00[AMR][1000 genomes]
rs12005758	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs28704948	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58290582	1.00[AMR][1000 genomes]
rs58604350	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59127855	1.00[AMR][1000 genomes]
rs61163672	0.83[AFR][1000 genomes];1.00[AMR][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	nsv531599	chr9:102227922-103156864	Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv893623	chr9:102648036-103405197	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:121 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:103057600-103112600	Weak transcription	Fetal Brain Male	brain
2	chr9:103065000-103114200	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr9:103066200-103112600	Weak transcription	Pancreas	Pancrea
4	chr9:103066200-103113200	Weak transcription	Spleen	Spleen
5	chr9:103066200-103113800	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr9:103067600-103112400	Weak transcription	Small Intestine	intestine
7	chr9:103072200-103113800	Weak transcription	Skeletal Muscle Male	skeletal muscle
8	chr9:103074000-103113200	Weak transcription	Brain Cingulate Gyrus	brain
9	chr9:103078400-103111200	Strong transcription	Primary hematopoietic stem cells short term culture	blood
10	chr9:103078400-103112200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr9:103078600-103109000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
12	chr9:103079800-103107600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr9:103080000-103108400	Weak transcription	HSMMtube	muscle
14	chr9:103081200-103107600	Weak transcription	Stomach Smooth Muscle	stomach
15	chr9:103082800-103111800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
16	chr9:103083800-103113800	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr9:103086600-103107800	Weak transcription	NHLF	lung
18	chr9:103088400-103112000	Weak transcription	Brain Germinal Matrix	brain
19	chr9:103088600-103107800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr9:103088600-103112400	Weak transcription	Brain Angular Gyrus	brain
21	chr9:103088600-103113000	Weak transcription	Fetal Brain Female	brain
22	chr9:103088600-103114400	Weak transcription	Lung	lung
23	chr9:103088800-103107400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr9:103088800-103108800	Weak transcription	Brain Anterior Caudate	brain
25	chr9:103088800-103112400	Weak transcription	Psoas Muscle	Psoas
26	chr9:103088800-103113400	Weak transcription	Fetal Intestine Small	intestine
27	chr9:103088800-103114400	Weak transcription	Gastric	stomach
28	chr9:103089400-103112800	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr9:103090200-103107400	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr9:103090600-103111600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr9:103090800-103107600	Weak transcription	Osteobl	bone
32	chr9:103091000-103108200	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr9:103091000-103110200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
34	chr9:103091200-103113200	Weak transcription	Liver	Liver
35	chr9:103092400-103107200	Weak transcription	HUVEC	blood vessel
36	chr9:103092400-103107400	Weak transcription	Fetal Lung	lung
37	chr9:103092400-103107600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
38	chr9:103092400-103107600	Weak transcription	NH-A	brain
39	chr9:103092400-103108800	Weak transcription	NHDF-Ad	bronchial
40	chr9:103092400-103112400	Weak transcription	Sigmoid Colon	Sigmoid Colon
41	chr9:103092400-103113800	Weak transcription	Rectal Smooth Muscle	rectum
42	chr9:103092600-103107800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
43	chr9:103092600-103113800	Weak transcription	Brain Hippocampus Middle	brain
44	chr9:103093400-103109000	Weak transcription	Ovary	ovary
45	chr9:103094800-103107600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
46	chr9:103095800-103108000	Weak transcription	Cortex derived primary cultured neurospheres	brain
47	chr9:103096000-103111000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
48	chr9:103098600-103107600	Weak transcription	Placenta	Placenta
49	chr9:103099000-103111800	Strong transcription	K562	blood
50	chr9:103099800-103109800	Strong transcription	Primary monocytes fromperipheralblood	blood

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