Variant report

Variant	rs16860850
Chromosome Location	chr3:113051624-113051625
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 64 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10934229	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10934230	0.91[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10934231	0.81[EUR][1000 genomes]
rs12630518	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12634060	0.83[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12634440	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12636959	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12637924	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13318454	0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1463644	0.81[EUR][1000 genomes]
rs16860868	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs16860899	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17882622	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2270781	0.83[AFR][1000 genomes];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2291413	0.81[EUR][1000 genomes]
rs28662393	0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34965320	0.88[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4682133	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4682136	0.81[EUR][1000 genomes]
rs4682137	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4682485	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4682489	0.81[EUR][1000 genomes]
rs55667700	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55710804	0.80[EUR][1000 genomes]
rs55748551	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55757335	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs55865352	0.81[EUR][1000 genomes]
rs55973292	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs56339567	0.81[EUR][1000 genomes]
rs60329418	0.81[EUR][1000 genomes]
rs62265992	0.82[EUR][1000 genomes]
rs62265996	0.81[EUR][1000 genomes]
rs6438138	0.80[AMR][1000 genomes];0.83[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6438142	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6801184	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6809516	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73235041	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73235059	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73235065	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73235066	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73235068	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs73237104	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs73237110	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73237123	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs73237130	0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs73237143	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73237146	0.81[EUR][1000 genomes]
rs73239107	0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs73239111	0.81[EUR][1000 genomes]
rs73239117	0.81[EUR][1000 genomes]
rs73239126	0.87[EUR][1000 genomes]
rs763805	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8179926	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9820386	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9822309	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9842039	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9844111	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9847084	0.82[AMR][1000 genomes];0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9852204	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9857414	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9863193	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9878805	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.99[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	esv3431441	chr3:112453467-113213252	Active TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv1013506	chr3:112890608-113680951	Weak transcription Bivalent/Poised TSS Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:35 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:113013600-113065200	Weak transcription	Left Ventricle	heart
2	chr3:113024600-113081000	Weak transcription	Stomach Smooth Muscle	stomach
3	chr3:113028600-113053400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr3:113034800-113053600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr3:113034800-113054000	Weak transcription	Psoas Muscle	Psoas
6	chr3:113035000-113052000	Weak transcription	HSMMtube	muscle
7	chr3:113035000-113053000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr3:113035400-113052800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr3:113036400-113053400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr3:113036400-113055600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
11	chr3:113036600-113081000	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr3:113036800-113065600	Weak transcription	Aorta	Aorta
13	chr3:113036800-113073600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr3:113036800-113081000	Weak transcription	Gastric	stomach
15	chr3:113036800-113088600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
16	chr3:113037000-113053600	Weak transcription	Primary T helper cells fromperipheralblood	blood
17	chr3:113037800-113065600	Weak transcription	HSMM	muscle
18	chr3:113042000-113080800	Weak transcription	Ovary	ovary
19	chr3:113042200-113116800	Weak transcription	Primary B cells from cord blood	blood
20	chr3:113042400-113059800	Weak transcription	Pancreas	Pancrea
21	chr3:113042400-113103600	Weak transcription	Sigmoid Colon	Sigmoid Colon
22	chr3:113043800-113065600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr3:113045400-113053000	Weak transcription	Brain Anterior Caudate	brain
24	chr3:113045400-113055400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:113045400-113097600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr3:113045600-113073000	Weak transcription	A549	lung
27	chr3:113049400-113068400	Weak transcription	Hela-S3	cervix
28	chr3:113049600-113061000	Weak transcription	Primary hematopoietic stem cells	blood
29	chr3:113050000-113055600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
30	chr3:113050200-113065000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
31	chr3:113050200-113073000	Weak transcription	Primary T cells from cord blood	blood
32	chr3:113050400-113061800	Weak transcription	Fetal Intestine Small	intestine
33	chr3:113050600-113065000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
34	chr3:113051400-113054000	Weak transcription	Small Intestine	intestine
35	chr3:113051600-113051800	Enhancers	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links