Variant report

Variant	rs1180134
Chromosome Location	chr9:72907707-72907708
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10114223	0.90[EUR][1000 genomes]
rs10868800	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs10868810	0.95[EUR][1000 genomes]
rs11142348	0.88[CEU][hapmap];0.95[EUR][1000 genomes]
rs11142364	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11142372	1.00[CEU][hapmap];0.93[EUR][1000 genomes]
rs11142375	0.91[EUR][1000 genomes]
rs11142377	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11521805	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs11795149	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1180080	1.00[EUR][1000 genomes]
rs1180084	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1180089	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1180097	1.00[EUR][1000 genomes]
rs1180100	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1180113	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1180119	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1183311	1.00[EUR][1000 genomes]
rs11999862	0.95[EUR][1000 genomes]
rs12380824	1.00[AFR][1000 genomes]
rs17052678	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs1888155	0.95[EUR][1000 genomes]
rs1927094	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1927097	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs1927114	0.86[EUR][1000 genomes]
rs1927123	0.86[EUR][1000 genomes]
rs1927138	0.90[EUR][1000 genomes]
rs1927140	0.86[EUR][1000 genomes]
rs1927141	0.90[EUR][1000 genomes]
rs1927145	0.90[EUR][1000 genomes]
rs1927146	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs2148854	0.90[EUR][1000 genomes]
rs2148855	0.90[EUR][1000 genomes]
rs2182733	0.90[EUR][1000 genomes]
rs2209781	0.90[EUR][1000 genomes]
rs2225128	0.90[EUR][1000 genomes]
rs2309601	0.86[EUR][1000 genomes]
rs2309637	0.90[EUR][1000 genomes]
rs2309641	0.90[EUR][1000 genomes]
rs2309645	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs2309646	0.95[EUR][1000 genomes]
rs2871297	0.90[EUR][1000 genomes]
rs4744587	0.86[EUR][1000 genomes]
rs4744985	0.86[EUR][1000 genomes]
rs66524845	0.91[EUR][1000 genomes]
rs66756859	0.95[EUR][1000 genomes]
rs7020575	0.86[EUR][1000 genomes]
rs7042675	0.88[EUR][1000 genomes]
rs72712293	1.00[EUR][1000 genomes]
rs72712300	0.95[EUR][1000 genomes]
rs7341691	1.00[EUR][1000 genomes]
rs7848955	0.86[EUR][1000 genomes]
rs7865289	0.86[EUR][1000 genomes]
rs9410662	1.00[EUR][1000 genomes]
rs943532	0.90[EUR][1000 genomes]
rs943533	0.90[EUR][1000 genomes]
rs943535	1.00[CEU][hapmap];0.98[EUR][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	nsv1047862	chr9:72746875-73138287	Enhancers Strong transcription Genic enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv831615	chr9:72852705-73019692	Strong transcription Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
3	nsv1049132	chr9:72895382-73005897	Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:114 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72875000-72949800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
2	chr9:72876400-72916800	Weak transcription	Colonic Mucosa	Colon
3	chr9:72876400-72939400	Weak transcription	Spleen	Spleen
4	chr9:72876400-72942600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr9:72876400-72955200	Weak transcription	Stomach Mucosa	stomach
6	chr9:72877000-72939800	Weak transcription	Gastric	stomach
7	chr9:72877000-72942800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr9:72877600-72909600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr9:72877600-72935800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr9:72878600-72937600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr9:72880000-72939400	Weak transcription	Brain Cingulate Gyrus	brain
12	chr9:72885400-72916800	Weak transcription	Esophagus	oesophagus
13	chr9:72887600-72916800	Weak transcription	Aorta	Aorta
14	chr9:72891000-72908800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
15	chr9:72891000-72911000	Strong transcription	HSMM	muscle
16	chr9:72891000-72923400	Strong transcription	Dnd41	blood
17	chr9:72891400-72948200	Strong transcription	Monocytes-CD14+_RO01746	blood
18	chr9:72893400-72908000	Strong transcription	Primary T helper cells fromperipheralblood	blood
19	chr9:72894600-72917000	Weak transcription	Pancreas	Pancrea
20	chr9:72896200-72916800	Weak transcription	Right Ventricle	heart
21	chr9:72897800-72912800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr9:72898200-72922200	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr9:72898600-72912800	Weak transcription	Fetal Brain Male	brain
24	chr9:72899000-72914600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
25	chr9:72899200-72914200	Weak transcription	NHEK	skin
26	chr9:72899600-72913000	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr9:72900600-72916800	Weak transcription	Lung	lung
28	chr9:72900600-72916800	Weak transcription	Placenta Amnion	Placenta Amnion
29	chr9:72900600-72924000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr9:72900600-72939400	Weak transcription	Small Intestine	intestine
31	chr9:72900600-72942600	Weak transcription	H9 Cell Line	embryonic stem cell
32	chr9:72900800-72916800	Weak transcription	Brain Substantia Nigra	brain
33	chr9:72901000-72912800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
34	chr9:72901200-72910000	Weak transcription	Fetal Stomach	stomach
35	chr9:72902200-72915000	Weak transcription	Left Ventricle	heart
36	chr9:72902600-72910800	Strong transcription	Muscle Satellite Cultured Cells	--
37	chr9:72903000-72930400	Weak transcription	Brain Angular Gyrus	brain
38	chr9:72904200-72908000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr9:72904200-72912800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
40	chr9:72904800-72909600	Strong transcription	Placenta	Placenta
41	chr9:72904800-72911200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr9:72905000-72910000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
43	chr9:72905200-72907800	ZNF genes & repeats	GM12878-XiMat	blood
44	chr9:72905200-72908000	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
45	chr9:72905400-72908800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr9:72905600-72907800	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
47	chr9:72905600-72908200	ZNF genes & repeats	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr9:72905600-72908400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
49	chr9:72905600-72910600	Strong transcription	Primary T cells fromperipheralblood	blood
50	chr9:72905600-72911000	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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