Variant report

Variant	rs9526525
Chromosome Location	chr13:49725759-49725760
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs12872974	0.80[EUR][1000 genomes]
rs1359066	0.80[EUR][1000 genomes]
rs1407827	0.88[EUR][1000 genomes]
rs1407829	0.83[EUR][1000 genomes]
rs1535922	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1937181	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1983805	0.88[EUR][1000 genomes]
rs2021622	0.81[EUR][1000 genomes]
rs2146748	0.83[EUR][1000 genomes]
rs2147399	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2181537	0.82[EUR][1000 genomes]
rs2181538	0.82[EUR][1000 genomes]
rs2181539	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2994377	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs2994378	0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs34360275	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35018425	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4142065	0.81[EUR][1000 genomes]
rs4245350	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4530025	0.83[EUR][1000 genomes]
rs6561496	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs6561504	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs67235936	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7139746	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7139819	0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs716722	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7317908	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7318871	0.80[EUR][1000 genomes]
rs7331917	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7333285	0.92[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7338529	0.86[EUR][1000 genomes]
rs7990573	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7994845	0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7996151	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9526526	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9535145	0.84[AFR][1000 genomes];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9535147	0.80[EUR][1000 genomes]
rs9535149	0.82[EUR][1000 genomes]
rs9535154	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9535155	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9535156	0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9535166	0.84[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9535167	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9535172	0.81[AMR][1000 genomes]
rs9562870	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9568150	0.82[EUR][1000 genomes]
rs9568151	0.82[EUR][1000 genomes]
rs9596064	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs972297	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049117	chr13:49089476-49928945	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
2	esv1793883	chr13:49543723-49789164	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	esv1796840	chr13:49671215-49760666	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv1052168	chr13:49691378-49743696	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	Chromatin interactive region	1 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	chr13:49687600-49789000	Weak transcription	Stomach Mucosa	stomach
2	chr13:49693600-49737200	Weak transcription	Spleen	Spleen
3	chr13:49705400-49726600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr13:49705800-49737200	Weak transcription	Right Ventricle	heart
5	chr13:49706000-49737400	Weak transcription	Gastric	stomach
6	chr13:49706000-49748200	Weak transcription	K562	blood
7	chr13:49706600-49737000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr13:49706800-49737400	Weak transcription	Small Intestine	intestine
9	chr13:49707800-49737200	Weak transcription	Lung	lung
10	chr13:49708000-49725800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr13:49709600-49737200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr13:49711600-49737200	Weak transcription	Colonic Mucosa	Colon
13	chr13:49711800-49725800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr13:49711800-49726600	Strong transcription	Placenta	Placenta
15	chr13:49711800-49736600	Weak transcription	Pancreas	Pancrea
16	chr13:49714200-49737400	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr13:49715000-49737200	Weak transcription	Aorta	Aorta
18	chr13:49715400-49737600	Weak transcription	HSMMtube	muscle
19	chr13:49718800-49725800	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
20	chr13:49719600-49726400	Strong transcription	Fetal Thymus	thymus
21	chr13:49719800-49726000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
22	chr13:49720200-49726000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr13:49720400-49732400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
24	chr13:49720600-49737600	Weak transcription	HepG2	liver
25	chr13:49720600-49742200	Weak transcription	Hela-S3	cervix
26	chr13:49721000-49725800	ZNF genes & repeats	GM12878-XiMat	blood
27	chr13:49721400-49726200	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr13:49721400-49726600	ZNF genes & repeats	Primary hematopoietic stem cells	blood
29	chr13:49721600-49726400	ZNF genes & repeats	Breast Myoepithelial Primary Cells	Breast
30	chr13:49721600-49726400	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
31	chr13:49721600-49726400	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr13:49721600-49737000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr13:49721600-49737400	Weak transcription	Brain Substantia Nigra	brain
34	chr13:49721600-49737400	Weak transcription	Colon Smooth Muscle	Colon
35	chr13:49721600-49737600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr13:49721600-49738000	Weak transcription	Brain Angular Gyrus	brain
37	chr13:49721800-49725800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr13:49721800-49726000	Strong transcription	Duodenum Mucosa	Duodenum
39	chr13:49721800-49736400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
40	chr13:49721800-49738000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
41	chr13:49721800-49751400	Weak transcription	NH-A	brain
42	chr13:49722000-49726600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr13:49722000-49726600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr13:49722000-49737400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
45	chr13:49722200-49725800	ZNF genes & repeats	Fetal Muscle Leg	muscle
46	chr13:49722200-49726600	ZNF genes & repeats	Pancreatic Islets	Pancreatic Islet
47	chr13:49722400-49726000	Strong transcription	Primary T helper cells fromperipheralblood	blood
48	chr13:49722400-49726200	ZNF genes & repeats	Fetal Muscle Trunk	muscle
49	chr13:49722400-49726400	ZNF genes & repeats	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr13:49722400-49726600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links