Variant report

Variant	rs13084432
Chromosome Location	chr3:101472829-101472830
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:101445300..101447876-chr3:101472535..101474338,2	K562	blood:

Variant related genes	Relation type
ENSG00000182504	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1031710	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1138818	0.81[ASN][1000 genomes]
rs11706494	0.82[EUR][1000 genomes]
rs11706986	0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11707250	0.84[EUR][1000 genomes]
rs11710805	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11711903	0.84[EUR][1000 genomes]
rs11712309	0.84[EUR][1000 genomes]
rs11712888	0.83[EUR][1000 genomes]
rs11714278	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11714444	0.84[EUR][1000 genomes]
rs11716558	0.83[EUR][1000 genomes]
rs11717046	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11717638	0.84[EUR][1000 genomes]
rs11720745	0.83[ASN][1000 genomes]
rs11914318	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11919389	0.83[ASN][1000 genomes]
rs12631513	0.84[EUR][1000 genomes]
rs12633089	0.82[EUR][1000 genomes]
rs12633770	0.80[EUR][1000 genomes]
rs13059470	0.83[ASN][1000 genomes]
rs13060963	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13065944	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13066768	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13068350	0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13077925	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13078652	0.84[EUR][1000 genomes]
rs13084113	0.82[EUR][1000 genomes]
rs13085776	0.84[EUR][1000 genomes]
rs13094753	0.84[EUR][1000 genomes]
rs13094911	0.84[EUR][1000 genomes]
rs13096323	0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13099674	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1460097	0.84[EUR][1000 genomes]
rs17347156	0.84[EUR][1000 genomes]
rs17347644	0.82[EUR][1000 genomes]
rs17411983	0.81[ASN][1000 genomes]
rs1963961	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1963962	0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2290859	0.84[EUR][1000 genomes]
rs2318090	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3094297	0.81[ASN][1000 genomes]
rs3109756	0.80[ASN][1000 genomes]
rs34063583	0.84[EUR][1000 genomes]
rs34161138	0.85[EUR][1000 genomes]
rs34181125	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34263427	0.84[EUR][1000 genomes]
rs34376498	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs34648996	0.84[EUR][1000 genomes]
rs34743741	0.82[EUR][1000 genomes]
rs34883763	0.82[ASN][1000 genomes]
rs34947019	0.82[EUR][1000 genomes]
rs34963630	0.84[EUR][1000 genomes]
rs35117343	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs35315807	0.82[EUR][1000 genomes]
rs35799195	0.84[EUR][1000 genomes]
rs35810977	0.83[EUR][1000 genomes]
rs35850993	0.85[ASN][1000 genomes]
rs36002990	0.84[ASN][1000 genomes]
rs3806653	0.81[ASN][1000 genomes]
rs3806654	0.81[ASN][1000 genomes]
rs4342086	0.84[EUR][1000 genomes]
rs55654108	0.80[ASN][1000 genomes]
rs55859364	0.82[ASN][1000 genomes]
rs58658478	0.84[EUR][1000 genomes]
rs61396602	0.84[EUR][1000 genomes]
rs62284198	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs62284199	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6768327	0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9830943	0.81[ASN][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	nsv497784	chr3:101315009-102092989	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv997407	chr3:101384031-101611391	Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv536675	chr3:101384031-101611391	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13084432	NXPE3	cis	Esophagus Muscularis	GTEx

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101445600-101497400	Weak transcription	Fetal Heart	heart
2	chr3:101451800-101476600	Weak transcription	Psoas Muscle	Psoas
3	chr3:101453400-101478400	Weak transcription	Small Intestine	intestine
4	chr3:101453800-101473600	Weak transcription	HSMMtube	muscle
5	chr3:101453800-101474200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr3:101453800-101487000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
7	chr3:101454000-101474000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr3:101454200-101473000	Weak transcription	HSMM	muscle
9	chr3:101454200-101474200	Weak transcription	HMEC	breast
10	chr3:101454600-101473400	Weak transcription	Hela-S3	cervix
11	chr3:101454600-101476400	Weak transcription	NHEK	skin
12	chr3:101454600-101476600	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr3:101454800-101474200	Weak transcription	Rectal Smooth Muscle	rectum
14	chr3:101454800-101476600	Weak transcription	A549	lung
15	chr3:101455200-101476600	Weak transcription	Pancreas	Pancrea
16	chr3:101455400-101473000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
17	chr3:101455400-101473000	Weak transcription	Duodenum Smooth Muscle	Duodenum
18	chr3:101455400-101473400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr3:101455400-101473400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
20	chr3:101455400-101474200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr3:101455400-101474200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
22	chr3:101455400-101474200	Weak transcription	Aorta	Aorta
23	chr3:101455400-101474200	Weak transcription	Brain Angular Gyrus	brain
24	chr3:101455400-101474200	Weak transcription	Brain Substantia Nigra	brain
25	chr3:101455400-101474200	Weak transcription	Colonic Mucosa	Colon
26	chr3:101455400-101474200	Weak transcription	Esophagus	oesophagus
27	chr3:101455400-101474200	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr3:101455400-101474400	Weak transcription	Ovary	ovary
29	chr3:101455400-101474400	Weak transcription	Placenta Amnion	Placenta Amnion
30	chr3:101455400-101474600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
31	chr3:101455400-101476200	Weak transcription	NHLF	lung
32	chr3:101455400-101476600	Weak transcription	Right Ventricle	heart
33	chr3:101455400-101476600	Weak transcription	K562	blood
34	chr3:101455400-101477800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr3:101455600-101473400	Weak transcription	Brain Hippocampus Middle	brain
36	chr3:101455600-101474000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr3:101455600-101474000	Weak transcription	Skeletal Muscle Female	skeletal muscle
38	chr3:101455600-101474000	Weak transcription	Thymus	Thymus
39	chr3:101455600-101474200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
40	chr3:101455600-101474200	Weak transcription	Primary neutrophils fromperipheralblood	blood
41	chr3:101455600-101474200	Weak transcription	GM12878-XiMat	blood
42	chr3:101455600-101476800	Weak transcription	Muscle Satellite Cultured Cells	--
43	chr3:101455800-101473000	Weak transcription	Brain Inferior Temporal Lobe	brain
44	chr3:101455800-101473400	Weak transcription	Left Ventricle	heart
45	chr3:101455800-101473800	Weak transcription	Primary B cells from peripheral blood	blood
46	chr3:101455800-101473800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr3:101455800-101473800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
48	chr3:101455800-101474000	Weak transcription	Primary T helper cells fromperipheralblood	blood
49	chr3:101455800-101474000	Weak transcription	Placenta	Placenta
50	chr3:101455800-101474200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links