Variant report

Variant	rs898604
Chromosome Location	chr11:46917983-46917984
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	chr11:46903167..46905489-chr11:46916312..46918025,2	K562	blood:
2	chr11:46917201..46919411-chr11:46921325..46923031,2	K562	blood:

Extended variants
information (count: 70 )
Associated
traits (count: 3 )

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

rs_ID	r²[population]
rs1007738	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.82[ASN][1000 genomes]
rs10734548	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap]
rs10742784	0.84[ASN][1000 genomes]
rs10769211	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.85[ASN][1000 genomes]
rs10769212	0.86[ASN][1000 genomes]
rs10838624	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10838627	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10838628	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10838629	0.93[ASN][1000 genomes]
rs11038977	0.83[CHB][hapmap];0.91[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs11038994	0.82[EUR][1000 genomes]
rs11038999	0.80[ASN][1000 genomes]
rs11039002	0.82[CHB][hapmap];0.97[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.83[ASN][1000 genomes]
rs11039014	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.86[ASN][1000 genomes]
rs11039017	0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11039018	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11039024	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11039035	0.90[GIH][hapmap];0.89[TSI][hapmap];0.81[EUR][1000 genomes]
rs11606992	0.93[EUR][1000 genomes]
rs12807111	0.92[ASN][1000 genomes]
rs1551744	0.82[CHB][hapmap];0.97[CHD][hapmap];0.95[JPT][hapmap];0.92[MEX][hapmap];0.81[ASN][1000 genomes]
rs17790204	0.81[EUR][1000 genomes]
rs1809293	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2035068	0.98[ASN][1000 genomes]
rs2070852	0.84[MEX][hapmap]
rs2290883	0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2290884	0.86[ASN][1000 genomes]
rs2306026	0.86[ASN][1000 genomes]
rs2306027	0.96[ASN][1000 genomes]
rs2306028	0.82[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2306033	0.82[CEU][hapmap];0.82[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap];0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2306035	0.96[ASN][1000 genomes]
rs2306036	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.94[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2306037	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2867219	0.95[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2903522	0.92[ASN][1000 genomes]
rs3136441	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs3136447	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs3136457	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs3136460	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs3816614	0.86[ASN][1000 genomes]
rs3829940	0.85[ASN][1000 genomes]
rs4076557	0.87[CHB][hapmap];0.93[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs4294527	0.82[CHB][hapmap];1.00[JPT][hapmap]
rs4394802	0.81[JPT][hapmap]
rs4469848	0.82[EUR][1000 genomes]
rs4494268	0.90[GIH][hapmap];0.89[TSI][hapmap]
rs4752932	0.82[CHB][hapmap];0.97[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs4752933	0.82[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs4752936	0.82[EUR][1000 genomes]
rs4752940	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4752941	0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs4752946	0.82[CHB][hapmap];0.97[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.88[TSI][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4752947	0.82[CHB][hapmap];1.00[JPT][hapmap];0.86[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs58389391	0.85[EUR][1000 genomes]
rs5896	0.83[CHB][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.88[TSI][hapmap]
rs60258676	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6485716	0.83[EUR][1000 genomes]
rs7101374	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap]
rs7107778	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.81[ASN][1000 genomes]
rs7118170	0.96[ASN][1000 genomes]
rs7119247	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7480140	0.82[ASN][1000 genomes]
rs7480260	0.81[ASN][1000 genomes]
rs7929294	1.00[CHD][hapmap];0.91[JPT][hapmap];0.83[MEX][hapmap]
rs7934421	0.82[ASN][1000 genomes]
rs7940441	0.83[CHB][hapmap];0.81[CHD][hapmap];0.82[JPT][hapmap];0.88[MEX][hapmap]
rs7941252	0.86[ASN][1000 genomes]
rs7943866	0.86[ASN][1000 genomes]
rs964551	0.82[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];0.86[ASN][1000 genomes]

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs898604	DDB2	Cis_1M	lymphoblastoid	RTeQTL
rs898604	ACP2	cis	lymphoblastoid	seeQTL
rs898604	PTPMT1	cis	parietal	SCAN

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:46877600-46919000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:46878400-46922000	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr11:46879800-46918200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr11:46886000-46921800	Weak transcription	Hela-S3	cervix
5	chr11:46887600-46918600	Weak transcription	NHDF-Ad	bronchial
6	chr11:46896600-46928200	Weak transcription	Fetal Heart	heart
7	chr11:46897400-46921800	Weak transcription	HMEC	breast
8	chr11:46898800-46920000	Weak transcription	Stomach Mucosa	stomach
9	chr11:46900800-46923400	Weak transcription	Aorta	Aorta
10	chr11:46905600-46922600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
11	chr11:46907000-46921200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
12	chr11:46908800-46918000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr11:46910000-46918600	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr11:46910400-46919000	Strong transcription	Duodenum Mucosa	Duodenum
15	chr11:46911200-46933800	Weak transcription	Fetal Kidney	kidney
16	chr11:46912800-46918800	Strong transcription	HUES64 Cell Line	embryonic stem cell
17	chr11:46913000-46918600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr11:46913000-46918800	Strong transcription	iPS-20b Cell Line	embryonic stem cell
19	chr11:46913000-46922800	Strong transcription	Fetal Stomach	stomach
20	chr11:46913400-46918400	Strong transcription	HUES6 Cell Line	embryonic stem cell
21	chr11:46913400-46918400	Strong transcription	Fetal Intestine Large	intestine
22	chr11:46913400-46918600	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr11:46914200-46918400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
24	chr11:46914200-46918800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr11:46914400-46918200	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr11:46914400-46918200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr11:46914400-46919000	Strong transcription	Rectal Mucosa Donor 29	rectum
28	chr11:46915000-46918400	Strong transcription	H1 Cell Line	embryonic stem cell
29	chr11:46915200-46918400	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr11:46915800-46918400	Strong transcription	Placenta	Placenta
31	chr11:46915800-46918800	Strong transcription	Fetal Intestine Small	intestine
32	chr11:46916000-46918000	Strong transcription	H9 Cell Line	embryonic stem cell
33	chr11:46916000-46918200	Strong transcription	Sigmoid Colon	Sigmoid Colon
34	chr11:46916000-46918400	Strong transcription	HepG2	liver
35	chr11:46916000-46918600	Strong transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr11:46916000-46918800	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
37	chr11:46916000-46923400	Strong transcription	Fetal Lung	lung
38	chr11:46916400-46919800	Weak transcription	Right Ventricle	heart
39	chr11:46916600-46918000	Enhancers	Skeletal Muscle Male	skeletal muscle
40	chr11:46916600-46918200	Enhancers	Fetal Brain Female	brain
41	chr11:46916600-46918600	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
42	chr11:46916600-46918600	Genic enhancers	Brain Inferior Temporal Lobe	brain
43	chr11:46916600-46918600	Genic enhancers	Brain Substantia Nigra	brain
44	chr11:46916600-46918600	Enhancers	Skeletal Muscle Female	skeletal muscle
45	chr11:46916600-46918800	Genic enhancers	Brain Anterior Caudate	brain
46	chr11:46916600-46918800	Genic enhancers	Fetal Muscle Trunk	muscle
47	chr11:46916600-46919800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
48	chr11:46916800-46918000	Enhancers	Psoas Muscle	Psoas
49	chr11:46916800-46918200	Enhancers	Brain Angular Gyrus	brain
50	chr11:46916800-46918200	Strong transcription	Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links