Variant report

Variant	rs12587434
Chromosome Location	chr14:55325583-55325584
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10131232	0.95[CHB][hapmap];0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs10133662	0.95[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs10133941	0.84[ASN][1000 genomes]
rs10483639	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11158028	0.83[CEU][hapmap]
rs11626298	0.87[ASN][1000 genomes]
rs11848732	0.85[ASN][1000 genomes]
rs12589758	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17127992	0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17128004	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2057368	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2057369	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2145945	0.81[ASN][1000 genomes]
rs2149483	0.94[ASN][1000 genomes]
rs2878168	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3759664	0.83[CEU][hapmap]
rs4411417	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4462519	0.86[ASN][1000 genomes]
rs55881030	0.82[EUR][1000 genomes]
rs55985131	0.91[ASN][1000 genomes]
rs57875940	0.95[EUR][1000 genomes]
rs58992937	0.87[EUR][1000 genomes]
rs59750960	0.86[EUR][1000 genomes]
rs60851395	0.84[EUR][1000 genomes]
rs67468157	0.92[ASN][1000 genomes]
rs7141685	0.81[ASN][1000 genomes]
rs7144602	0.95[CHB][hapmap]
rs7148266	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7151058	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7154323	0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7155309	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72713453	0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72713456	0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72713460	0.90[EUR][1000 genomes]
rs72713467	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs752688	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs8007201	0.95[CHB][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs8007267	0.83[CEU][hapmap]
rs8017210	0.83[CEU][hapmap]
rs841	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9323272	0.81[ASN][1000 genomes]
rs9671371	0.95[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs9671455	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9671850	0.98[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	nsv530042	chr14:55208170-55386966	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv819735	chr14:55319809-55326052	Flanking Active TSS Enhancers Genic enhancers Strong transcription Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:60 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:55303400-55337000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
2	chr14:55305200-55337200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr14:55305400-55325800	Weak transcription	Spleen	Spleen
4	chr14:55305800-55326400	Weak transcription	Fetal Thymus	thymus
5	chr14:55306200-55337000	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr14:55306400-55336800	Weak transcription	Dnd41	blood
7	chr14:55306600-55336600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr14:55306800-55327400	Weak transcription	Pancreas	Pancrea
9	chr14:55306800-55337000	Weak transcription	Brain Anterior Caudate	brain
10	chr14:55308000-55336600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr14:55308200-55332400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
12	chr14:55308400-55330600	Weak transcription	Rectal Mucosa Donor 29	rectum
13	chr14:55308600-55325600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr14:55308600-55325600	Weak transcription	Lung	lung
15	chr14:55309800-55325600	Weak transcription	Primary neutrophils fromperipheralblood	blood
16	chr14:55309800-55325800	Weak transcription	Thymus	Thymus
17	chr14:55311800-55331200	Weak transcription	Hela-S3	cervix
18	chr14:55311800-55337000	Weak transcription	Fetal Intestine Large	intestine
19	chr14:55313000-55325600	Weak transcription	Duodenum Mucosa	Duodenum
20	chr14:55313000-55325800	Weak transcription	Gastric	stomach
21	chr14:55321000-55329400	Weak transcription	Stomach Mucosa	stomach
22	chr14:55321000-55337000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr14:55321200-55337000	Weak transcription	H1 Cell Line	embryonic stem cell
24	chr14:55321400-55325600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
25	chr14:55321400-55325800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr14:55321400-55326800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr14:55321400-55329400	Weak transcription	HUES48 Cell Line	embryonic stem cell
28	chr14:55321600-55325600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
29	chr14:55321600-55325600	Weak transcription	Primary T helper cells PMA-I stimulated	--
30	chr14:55321600-55325800	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr14:55321800-55325600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr14:55322000-55325800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
33	chr14:55322800-55331600	Strong transcription	Primary T helper cells fromperipheralblood	blood
34	chr14:55323000-55327200	Strong transcription	Liver	Liver
35	chr14:55323400-55325600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
36	chr14:55323400-55325800	Weak transcription	Fetal Intestine Small	intestine
37	chr14:55324000-55325600	Enhancers	Primary monocytes fromperipheralblood	blood
38	chr14:55324000-55325800	Enhancers	Primary B cells from cord blood	blood
39	chr14:55324000-55325800	Enhancers	Primary B cells from peripheral blood	blood
40	chr14:55324200-55326000	Enhancers	Primary hematopoietic stem cells short term culture	blood
41	chr14:55324200-55326200	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
42	chr14:55324200-55327200	Strong transcription	Primary T cells from cord blood	blood
43	chr14:55324200-55331400	Strong transcription	Primary T cells fromperipheralblood	blood
44	chr14:55324400-55327800	Weak transcription	Fetal Muscle Leg	muscle
45	chr14:55324400-55334000	Weak transcription	Fetal Muscle Trunk	muscle
46	chr14:55324600-55325600	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
47	chr14:55324800-55326400	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
48	chr14:55324800-55327200	Strong transcription	HepG2	liver
49	chr14:55324800-55331200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
50	chr14:55324800-55332400	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links