Variant report

Variant	rs11675268
Chromosome Location	chr2:72695961-72695962
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:74)

rs_ID	r²[population]
rs1000523	1.00[JPT][hapmap]
rs10209861	1.00[JPT][hapmap]
rs10496184	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs10496185	0.84[CEU][hapmap];0.82[YRI][hapmap]
rs11126367	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11126369	1.00[CEU][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1123199	1.00[JPT][hapmap]
rs11675264	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11680197	0.96[YRI][hapmap];0.83[AFR][1000 genomes]
rs11685876	1.00[CEU][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11689339	0.84[CEU][hapmap]
rs11689707	0.84[CEU][hapmap];0.85[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11695000	1.00[CEU][hapmap];0.89[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs11695629	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11884162	1.00[CEU][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11887356	0.86[YRI][hapmap];0.82[AFR][1000 genomes]
rs11892598	0.84[CEU][hapmap]
rs11897200	0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs11903908	0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs17008057	0.89[YRI][hapmap]
rs17008082	0.96[YRI][hapmap];0.85[AFR][1000 genomes]
rs17008143	0.87[YRI][hapmap]
rs17008186	1.00[CEU][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17008188	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17008208	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs17008241	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs17008293	0.86[CEU][hapmap];0.82[YRI][hapmap]
rs17263172	1.00[CEU][hapmap]
rs17725024	1.00[JPT][hapmap]
rs1949377	1.00[CEU][hapmap];0.87[YRI][hapmap];0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2109963	1.00[JPT][hapmap]
rs2901190	1.00[CEU][hapmap];0.86[YRI][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4507127	0.87[YRI][hapmap];0.84[AFR][1000 genomes]
rs4508623	0.87[YRI][hapmap];0.84[AFR][1000 genomes]
rs55728837	0.81[AFR][1000 genomes]
rs55747300	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55825364	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs55939880	0.82[AFR][1000 genomes]
rs56184446	0.82[AFR][1000 genomes]
rs56718524	0.86[AFR][1000 genomes]
rs56777837	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs58582296	0.85[AFR][1000 genomes]
rs58967293	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs59176504	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs59881252	0.84[AFR][1000 genomes]
rs60563535	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60580301	0.84[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs632670	0.82[YRI][hapmap]
rs6546771	0.92[AFR][1000 genomes]
rs66489235	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs66539158	0.82[AFR][1000 genomes]
rs66560019	0.86[AFR][1000 genomes]
rs6711701	0.81[EUR][1000 genomes]
rs6713712	0.86[CEU][hapmap]
rs6719255	1.00[JPT][hapmap]
rs6727580	0.93[YRI][hapmap];0.83[AFR][1000 genomes]
rs6733538	0.96[YRI][hapmap];0.93[AFR][1000 genomes]
rs6739768	0.86[CEU][hapmap];0.82[EUR][1000 genomes]
rs6740390	0.84[CEU][hapmap]
rs67491855	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6756070	0.84[CEU][hapmap]
rs688433	0.82[YRI][hapmap]
rs72845175	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7557942	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7561471	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7571483	0.84[AFR][1000 genomes]
rs7571517	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7575050	0.96[YRI][hapmap];0.88[AFR][1000 genomes]
rs7577244	1.00[CEU][hapmap];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7583268	0.96[YRI][hapmap];0.86[AFR][1000 genomes]
rs7591608	0.81[AFR][1000 genomes]
rs7604083	0.86[CEU][hapmap];0.81[EUR][1000 genomes]
rs764766	0.84[CEU][hapmap]
rs9678682	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv963919	chr2:72372956-72830387	Enhancers Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv1005487	chr2:72464784-72819704	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv999179	chr2:72561463-72761103	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1008335	chr2:72561463-72819704	ZNF genes & repeats Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv874264	chr2:72593243-72901170	Weak transcription Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv582208	chr2:72690622-72835886	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:72672000-72702200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr2:72680800-72702000	Weak transcription	Fetal Stomach	stomach
3	chr2:72685600-72702000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr2:72689800-72702200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr2:72690000-72702200	Weak transcription	Pancreas	Pancrea
6	chr2:72690400-72702200	Weak transcription	Fetal Kidney	kidney
7	chr2:72691200-72697600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
8	chr2:72691200-72702000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
9	chr2:72691200-72702000	Weak transcription	Right Ventricle	heart
10	chr2:72691400-72702400	Weak transcription	Rectal Mucosa Donor 31	rectum
11	chr2:72691400-72712600	Weak transcription	Osteobl	bone
12	chr2:72691400-72724200	Weak transcription	Psoas Muscle	Psoas
13	chr2:72691400-72726400	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr2:72691600-72696200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
15	chr2:72691600-72698800	Weak transcription	Fetal Heart	heart
16	chr2:72691600-72699000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr2:72691600-72702000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
18	chr2:72691600-72702200	Weak transcription	Aorta	Aorta
19	chr2:72691600-72702200	Weak transcription	Brain Cingulate Gyrus	brain
20	chr2:72691600-72702200	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr2:72691600-72702200	Weak transcription	Lung	lung
22	chr2:72691600-72702400	Weak transcription	Rectal Smooth Muscle	rectum
23	chr2:72691600-72702400	Weak transcription	NHEK	skin
24	chr2:72691600-72707600	Weak transcription	Brain Angular Gyrus	brain
25	chr2:72691600-72724200	Weak transcription	HUVEC	blood vessel
26	chr2:72691600-72741800	Weak transcription	Colon Smooth Muscle	Colon
27	chr2:72691800-72702000	Weak transcription	Brain Anterior Caudate	brain
28	chr2:72691800-72702000	Weak transcription	Duodenum Smooth Muscle	Duodenum
29	chr2:72691800-72702200	Weak transcription	Brain Hippocampus Middle	brain
30	chr2:72691800-72702200	Weak transcription	Brain Substantia Nigra	brain
31	chr2:72691800-72702200	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr2:72691800-72702200	Weak transcription	Stomach Smooth Muscle	stomach
33	chr2:72692400-72696000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
34	chr2:72692400-72702000	Weak transcription	Ovary	ovary
35	chr2:72692400-72702000	Weak transcription	Placenta Amnion	Placenta Amnion
36	chr2:72692400-72702200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
37	chr2:72692400-72742000	Weak transcription	Small Intestine	intestine
38	chr2:72692600-72699200	Weak transcription	Liver	Liver
39	chr2:72692600-72701800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr2:72692600-72702000	Weak transcription	Placenta	Placenta
41	chr2:72692600-72702200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr2:72692600-72702200	Weak transcription	Left Ventricle	heart
43	chr2:72692600-72702200	Weak transcription	Skeletal Muscle Female	skeletal muscle
44	chr2:72692600-72727600	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr2:72692800-72702200	Weak transcription	Adipose Nuclei	Adipose
46	chr2:72693000-72698600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr2:72693000-72703400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
48	chr2:72693200-72698600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
49	chr2:72693600-72702200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links