Variant report

Variant	rs13172080
Chromosome Location	chr5:60766893-60766894
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 108 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:107)

rs_ID	r²[population]
rs10041978	0.94[ASN][1000 genomes]
rs1045352	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10939900	0.82[ASN][1000 genomes]
rs10939901	0.82[ASN][1000 genomes]
rs10939902	0.81[ASN][1000 genomes]
rs10939903	0.94[ASN][1000 genomes]
rs10939905	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11742658	0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11743711	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11747564	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11749200	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11750589	0.81[ASN][1000 genomes]
rs11950318	0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11952146	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11954430	1.00[ASN][1000 genomes]
rs12187112	0.93[AMR][1000 genomes]
rs12188685	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12188710	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12189001	0.82[ASN][1000 genomes]
rs12518479	0.82[ASN][1000 genomes]
rs12520628	0.82[ASN][1000 genomes]
rs12522647	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13156100	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13157657	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13157831	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13158413	0.94[ASN][1000 genomes]
rs13158675	0.82[ASN][1000 genomes]
rs13159018	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13159166	0.87[AFR][1000 genomes];0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13160801	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13162358	0.82[ASN][1000 genomes]
rs13162694	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs13163970	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13166934	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13169711	0.82[ASN][1000 genomes]
rs13170262	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13171497	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13171757	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13172084	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13178686	0.82[ASN][1000 genomes]
rs13179091	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13179617	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13181015	0.81[ASN][1000 genomes]
rs13185068	0.98[ASN][1000 genomes]
rs13185783	0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13186194	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13188685	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1348716	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1363892	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1374043	1.00[ASN][1000 genomes]
rs1445976	0.98[ASN][1000 genomes]
rs1445979	0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1445980	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1445981	0.88[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1477355	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17424296	0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs1986252	1.00[ASN][1000 genomes]
rs2034239	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2053693	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2053694	0.98[ASN][1000 genomes]
rs2276987	0.82[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28610339	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34739794	0.80[ASN][1000 genomes]
rs35262187	0.82[ASN][1000 genomes]
rs4392578	0.82[ASN][1000 genomes]
rs4484384	0.82[ASN][1000 genomes]
rs4604142	0.82[ASN][1000 genomes]
rs55838118	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56035042	0.82[ASN][1000 genomes]
rs60529601	0.82[ASN][1000 genomes]
rs60886975	0.82[ASN][1000 genomes]
rs62368660	0.82[ASN][1000 genomes]
rs6449528	0.82[ASN][1000 genomes]
rs6449529	0.82[ASN][1000 genomes]
rs6449530	0.81[ASN][1000 genomes]
rs6449531	0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6449532	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6449533	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6449535	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs66775554	0.98[ASN][1000 genomes]
rs6860608	0.81[ASN][1000 genomes]
rs6865624	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6873712	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6874264	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6874266	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6877610	0.82[ASN][1000 genomes]
rs6878927	0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6879809	0.98[ASN][1000 genomes]
rs6881765	0.82[ASN][1000 genomes]
rs6881799	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6882136	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6885005	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6890351	0.87[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6894675	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6895046	1.00[ASN][1000 genomes]
rs6898746	0.97[ASN][1000 genomes]
rs7443602	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7700289	0.82[ASN][1000 genomes]
rs7709645	0.81[ASN][1000 genomes]
rs7714457	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7714712	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7717082	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7719647	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7722810	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7727824	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7732234	0.95[ASN][1000 genomes]
rs7734879	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.81[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2753894	chr5:60731458-60777345	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:60744400-60767800	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr5:60747600-60770600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr5:60757600-60771000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr5:60758000-60772800	Weak transcription	Fetal Intestine Large	intestine
5	chr5:60759400-60773000	Weak transcription	Right Ventricle	heart
6	chr5:60759800-60771400	Weak transcription	Fetal Heart	heart
7	chr5:60759800-60807400	Weak transcription	Fetal Stomach	stomach
8	chr5:60760400-60807800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr5:60760600-60824800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
10	chr5:60760800-60767000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
11	chr5:60760800-60773000	Weak transcription	Gastric	stomach
12	chr5:60760800-60821200	Weak transcription	Esophagus	oesophagus
13	chr5:60761000-60767000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr5:60761000-60767200	Weak transcription	Lung	lung
15	chr5:60761000-60769800	Weak transcription	Pancreas	Pancrea
16	chr5:60761000-60773000	Weak transcription	Left Ventricle	heart
17	chr5:60761000-60781200	Weak transcription	Psoas Muscle	Psoas
18	chr5:60761000-60798000	Weak transcription	Aorta	Aorta
19	chr5:60761000-60820800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr5:60762400-60775000	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr5:60763000-60768400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr5:60763800-60768600	Weak transcription	HUVEC	blood vessel
23	chr5:60763800-60773000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr5:60763800-60792000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
25	chr5:60763800-60792400	Weak transcription	HMEC	breast
26	chr5:60763800-60804400	Weak transcription	NHDF-Ad	bronchial
27	chr5:60764000-60772800	Weak transcription	Fetal Lung	lung
28	chr5:60764000-60773000	Weak transcription	NHEK	skin
29	chr5:60764000-60773400	Weak transcription	Primary neutrophils fromperipheralblood	blood
30	chr5:60764000-60820600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr5:60764200-60767000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr5:60764200-60767000	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr5:60764200-60767200	Weak transcription	Rectal Smooth Muscle	rectum
34	chr5:60764200-60773000	Weak transcription	NHLF	lung
35	chr5:60764200-60775200	Weak transcription	Duodenum Mucosa	Duodenum
36	chr5:60764200-60781400	Weak transcription	HSMMtube	muscle
37	chr5:60764400-60768600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr5:60764600-60767000	Weak transcription	Fetal Intestine Small	intestine
39	chr5:60764600-60768000	Weak transcription	Liver	Liver
40	chr5:60764600-60768600	Weak transcription	HSMM	muscle
41	chr5:60764600-60771800	Weak transcription	Hela-S3	cervix
42	chr5:60764600-60772800	Weak transcription	Duodenum Smooth Muscle	Duodenum
43	chr5:60764600-60772800	Weak transcription	Ovary	ovary
44	chr5:60764600-60775200	Weak transcription	Colon Smooth Muscle	Colon
45	chr5:60764600-60775200	Weak transcription	Small Intestine	intestine
46	chr5:60764600-60780400	Weak transcription	Fetal Kidney	kidney
47	chr5:60764600-60792200	Weak transcription	NH-A	brain
48	chr5:60764800-60773000	Weak transcription	Osteobl	bone
49	chr5:60764800-60773200	Weak transcription	Rectal Mucosa Donor 29	rectum
50	chr5:60764800-60773200	Weak transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links