Variant report

Variant	rs17046216
Chromosome Location	chr4:166255704-166255705
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:166248323..166249868-chr4:166255521..166257820,2	MCF-7	breast:
2	chr4:166247158..166249683-chr4:166253375..166256427,3	MCF-7	breast:
3	chr4:166254481..166256226-chr4:166260007..166262078,2	K562	blood:

Variant related genes	Relation type
ENSG00000052802	Chromatin interaction

Extended variants
information (count: 32 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10517833	1.00[CHB][hapmap]
rs11726415	0.90[CEU][hapmap];1.00[CHB][hapmap];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11729568	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11730543	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11944540	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1530043	1.00[CHB][hapmap]
rs17488289	1.00[CHB][hapmap]
rs17488436	1.00[CHB][hapmap]
rs17488534	0.94[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[LWK][hapmap];0.93[MEX][hapmap];1.00[MKK][hapmap];0.83[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17488569	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17488814	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17488835	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17488877	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17585396	1.00[CHB][hapmap]
rs17585550	1.00[CHB][hapmap]
rs1818471	1.00[CHB][hapmap]
rs2118496	0.81[AFR][1000 genomes]
rs28678592	1.00[CHB][hapmap]
rs36230153	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4353858	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4588420	1.00[CHB][hapmap]
rs56387271	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6829944	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6830103	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72701623	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72701624	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72701625	0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs72701638	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72701640	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72701655	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72701660	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs72701663	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant related diseases (count:1)

Disease	PMID	Source
Insulin-related traits	22791750	GWAS catalog

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17046216	CPE	cis	multi-tissue	Pritchard
rs17046216	CPE	cis	Liver	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166249600-166266600	Weak transcription	Left Ventricle	heart
2	chr4:166249800-166262400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr4:166249800-166262600	Weak transcription	Thymus	Thymus
4	chr4:166250000-166264600	Weak transcription	Rectal Smooth Muscle	rectum
5	chr4:166250200-166259800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr4:166250200-166260400	Weak transcription	Skeletal Muscle Female	skeletal muscle
7	chr4:166250200-166260800	Weak transcription	Stomach Smooth Muscle	stomach
8	chr4:166250200-166262600	Weak transcription	Spleen	Spleen
9	chr4:166250200-166262800	Weak transcription	Right Ventricle	heart
10	chr4:166250200-166263800	Weak transcription	Colon Smooth Muscle	Colon
11	chr4:166250200-166265000	Weak transcription	Psoas Muscle	Psoas
12	chr4:166250200-166265200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
13	chr4:166250400-166255800	Transcr. at gene 5' and 3'	H9 Derived Neuron Cultured Cells	ES cell derived
14	chr4:166250400-166256000	Transcr. at gene 5' and 3'	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
15	chr4:166250400-166259600	Weak transcription	Fetal Kidney	kidney
16	chr4:166250400-166260800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
17	chr4:166250400-166260800	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr4:166250400-166262600	Weak transcription	Aorta	Aorta
19	chr4:166250600-166256200	Weak transcription	Pancreatic Islets	Pancreatic Islet
20	chr4:166250600-166259800	Weak transcription	Adipose Nuclei	Adipose
21	chr4:166250600-166259800	Weak transcription	Duodenum Smooth Muscle	Duodenum
22	chr4:166250600-166263200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
23	chr4:166250600-166265400	Weak transcription	Colonic Mucosa	Colon
24	chr4:166250600-166266800	Weak transcription	A549	lung
25	chr4:166252000-166259600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
26	chr4:166252200-166260200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
27	chr4:166252200-166269200	Weak transcription	Stomach Mucosa	stomach
28	chr4:166252200-166269400	Weak transcription	Gastric	stomach
29	chr4:166252400-166260400	Weak transcription	Esophagus	oesophagus
30	chr4:166252400-166260400	Weak transcription	Ovary	ovary
31	chr4:166252600-166260200	Weak transcription	Fetal Intestine Small	intestine
32	chr4:166252800-166259600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr4:166253200-166260200	Weak transcription	Fetal Stomach	stomach
34	chr4:166253400-166257000	Transcr. at gene 5' and 3'	GM12878-XiMat	blood
35	chr4:166253400-166260200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr4:166253400-166263000	Weak transcription	Pancreas	Pancrea
37	chr4:166253400-166272600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr4:166253600-166256200	Strong transcription	Osteobl	bone
39	chr4:166253600-166265400	Strong transcription	HUES48 Cell Line	embryonic stem cell
40	chr4:166253800-166255800	Weak transcription	Brain Angular Gyrus	brain
41	chr4:166253800-166256200	Weak transcription	Brain Inferior Temporal Lobe	brain
42	chr4:166253800-166257800	Weak transcription	Right Atrium	heart
43	chr4:166253800-166259600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr4:166253800-166260200	Weak transcription	Lung	lung
45	chr4:166253800-166265200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
46	chr4:166253800-166266600	Weak transcription	Small Intestine	intestine
47	chr4:166254000-166256200	Weak transcription	Brain Substantia Nigra	brain
48	chr4:166254000-166256400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
49	chr4:166254000-166256400	Weak transcription	Brain Anterior Caudate	brain
50	chr4:166254000-166256600	Strong transcription	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links