Variant report

Variant	rs3015165
Chromosome Location	chr9:72689359-72689360
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 89 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10114215	0.80[ASN][1000 genomes]
rs10511979	0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1073540	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1112232	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1180102	0.92[CHB][hapmap]
rs1180104	0.92[CHB][hapmap]
rs1180105	0.92[CHB][hapmap]
rs12002407	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12003971	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12683706	0.82[ASN][1000 genomes]
rs12683986	1.00[CHB][hapmap];0.92[JPT][hapmap]
rs12684987	0.82[ASN][1000 genomes]
rs12685632	0.96[ASN][1000 genomes]
rs12685937	0.94[ASN][1000 genomes]
rs12685939	0.96[ASN][1000 genomes]
rs12686383	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12686668	0.80[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17087686	0.97[ASN][1000 genomes]
rs17088796	0.82[ASN][1000 genomes]
rs17088840	0.82[ASN][1000 genomes]
rs17088889	0.82[ASN][1000 genomes]
rs17523363	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1927105	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1927110	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1927116	0.82[ASN][1000 genomes]
rs1927148	0.92[CHB][hapmap];0.91[JPT][hapmap]
rs1927150	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs1986412	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2001235	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2296772	0.88[ASN][1000 genomes]
rs2296773	0.88[ASN][1000 genomes]
rs2309584	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2871290	0.82[ASN][1000 genomes]
rs2975866	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2975867	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2975868	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2975880	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2975884	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2975911	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2997667	0.91[AFR][1000 genomes]
rs2997668	0.98[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2997679	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2997681	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2997714	0.94[ASN][1000 genomes]
rs3015169	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3015170	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3015171	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3015173	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3015174	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3015175	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3015177	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015180	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015181	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015182	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3015184	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3015185	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3015186	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3015189	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3015198	0.80[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3015204	0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3015207	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3015213	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3015223	0.90[ASN][1000 genomes]
rs35188046	0.82[ASN][1000 genomes]
rs3829096	0.90[ASN][1000 genomes]
rs4289878	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4460447	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4495496	0.88[ASN][1000 genomes]
rs4744982	0.82[ASN][1000 genomes]
rs58085049	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs58660710	0.96[ASN][1000 genomes]
rs58969772	0.80[ASN][1000 genomes]
rs59189596	0.82[ASN][1000 genomes]
rs59589460	0.82[ASN][1000 genomes]
rs59619263	0.82[ASN][1000 genomes]
rs61416419	0.94[ASN][1000 genomes]
rs7022893	0.80[ASN][1000 genomes]
rs7034322	0.92[CHB][hapmap]
rs716535	1.00[CHB][hapmap];0.95[JPT][hapmap]
rs72709197	0.96[ASN][1000 genomes]
rs72709200	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs72710469	0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs72710483	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs745852	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs867595	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs943540	0.92[CHB][hapmap];0.91[JPT][hapmap]

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	nsv893438	chr9:72363992-72720438	Weak transcription Enhancers Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
2	nsv1049457	chr9:72539144-72765913	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv831613	chr9:72586058-72740061	Weak transcription Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:72676600-72694000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
2	chr9:72677600-72694000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr9:72684800-72694000	Weak transcription	Adipose Nuclei	Adipose
4	chr9:72685000-72694600	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr9:72685200-72692200	Weak transcription	Small Intestine	intestine
6	chr9:72685200-72695800	Weak transcription	Aorta	Aorta
7	chr9:72685200-72696000	Weak transcription	Right Atrium	heart
8	chr9:72685400-72690400	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr9:72687200-72694800	Strong transcription	HSMMtube	muscle
10	chr9:72688000-72690200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
11	chr9:72688200-72689600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr9:72688400-72689600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr9:72688400-72690200	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr9:72688400-72694000	Enhancers	Rectal Smooth Muscle	rectum
15	chr9:72688600-72689400	Genic enhancers	Stomach Smooth Muscle	stomach
16	chr9:72688600-72695200	Weak transcription	HSMM	muscle
17	chr9:72688600-72696400	Enhancers	Ovary	ovary
18	chr9:72688800-72694000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
19	chr9:72688800-72694400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr9:72689000-72689600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr9:72689000-72692800	Enhancers	Duodenum Smooth Muscle	Duodenum
22	chr9:72689000-72695600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
23	chr9:72689200-72689400	Enhancers	Rectal Mucosa Donor 31	rectum
24	chr9:72689200-72690200	Flanking Active TSS	Colon Smooth Muscle	Colon
25	chr9:72689200-72691400	Enhancers	Fetal Stomach	stomach
26	chr9:72689200-72694600	Weak transcription	Muscle Satellite Cultured Cells	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links