Variant report

Variant	rs9661031
Chromosome Location	chr1:95504572-95504573
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10493880	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10735790	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10782996	0.94[ASN][1000 genomes]
rs10874902	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11165299	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11585462	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11591183	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12563592	0.82[EUR][1000 genomes]
rs12569038	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12569207	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12741128	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12748237	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12751774	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2391388	0.93[ASN][1000 genomes]
rs2391389	0.93[ASN][1000 genomes]
rs2766010	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2766011	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2797616	0.83[AMR][1000 genomes]
rs2797622	0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2893274	0.86[ASN][1000 genomes]
rs34280926	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35678413	0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs35888232	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4259714	0.82[ASN][1000 genomes]
rs4309032	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4339907	0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4390223	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4630159	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4847220	0.97[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4949965	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4950056	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4950057	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4950058	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs61774262	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6675668	0.98[ASN][1000 genomes]
rs6683112	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6687388	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6687450	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6698046	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7537374	0.92[ASN][1000 genomes]
rs7539139	0.93[ASN][1000 genomes]
rs7547662	0.84[ASN][1000 genomes]
rs9437665	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9437672	0.94[ASN][1000 genomes]
rs9437689	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9437810	0.94[ASN][1000 genomes]
rs9437812	0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9437813	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[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	nsv830636	chr1:95495849-95703126	Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	esv3402740	chr1:95500980-95527860	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:95480000-95508800	Weak transcription	Skeletal Muscle Female	skeletal muscle
2	chr1:95485200-95507000	Weak transcription	Fetal Heart	heart
3	chr1:95488000-95507000	Weak transcription	Ovary	ovary
4	chr1:95488200-95505400	Weak transcription	Pancreas	Pancrea
5	chr1:95488200-95507000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr1:95488200-95537600	Weak transcription	Right Ventricle	heart
7	chr1:95488400-95507000	Weak transcription	Brain Angular Gyrus	brain
8	chr1:95488400-95507800	Weak transcription	Brain Substantia Nigra	brain
9	chr1:95488600-95507800	Weak transcription	Colon Smooth Muscle	Colon
10	chr1:95488800-95505400	Weak transcription	Small Intestine	intestine
11	chr1:95489400-95517200	Weak transcription	Aorta	Aorta
12	chr1:95491400-95507000	Weak transcription	Fetal Kidney	kidney
13	chr1:95491600-95529600	Weak transcription	Rectal Mucosa Donor 29	rectum
14	chr1:95492600-95507800	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr1:95492800-95507000	Weak transcription	Fetal Stomach	stomach
16	chr1:95492800-95508800	Weak transcription	Primary T cells from cord blood	blood
17	chr1:95493400-95508800	Weak transcription	Liver	Liver
18	chr1:95495000-95504800	Weak transcription	Esophagus	oesophagus
19	chr1:95495200-95508000	Weak transcription	HepG2	liver
20	chr1:95495200-95508800	Weak transcription	Fetal Intestine Small	intestine
21	chr1:95495400-95505800	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr1:95495400-95507000	Weak transcription	Fetal Muscle Leg	muscle
23	chr1:95497000-95508000	Weak transcription	Left Ventricle	heart
24	chr1:95500600-95507000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
25	chr1:95501200-95504600	Weak transcription	Placenta Amnion	Placenta Amnion
26	chr1:95501200-95505800	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr1:95501200-95505800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr1:95501200-95505800	Weak transcription	HSMMtube	muscle
29	chr1:95501400-95506800	Weak transcription	NHLF	lung
30	chr1:95501800-95504800	Weak transcription	NH-A	brain
31	chr1:95501800-95504800	Weak transcription	Osteobl	bone
32	chr1:95501800-95505000	Weak transcription	HSMM	muscle
33	chr1:95501800-95506000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr1:95501800-95506000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
35	chr1:95501800-95506000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr1:95501800-95506800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
37	chr1:95501800-95507000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr1:95501800-95507000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr1:95502000-95507000	Weak transcription	Muscle Satellite Cultured Cells	--
40	chr1:95502000-95512200	Weak transcription	GM12878-XiMat	blood
41	chr1:95502600-95508000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
42	chr1:95502600-95509000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
43	chr1:95503200-95505800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
44	chr1:95503600-95504600	Enhancers	Primary monocytes fromperipheralblood	blood
45	chr1:95504000-95504800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
46	chr1:95504400-95505000	Enhancers	Primary neutrophils fromperipheralblood	blood
47	chr1:95504400-95506200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr1:95504400-95506600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr1:95504400-95507200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr1:95504400-95507200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links