Variant report

Variant	rs11654562
Chromosome Location	chr17:16960784-16960785
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr17:16945357..16947606-chr17:16959220..16962216,2	K562	blood:
2	chr17:16960541..16963488-chr17:16973669..16975731,3	MCF-7	breast:
3	chr17:16959720..16962081-chr17:16964608..16966842,2	K562	blood:
4	chr17:16958058..16960902-chr17:16966512..16968421,3	MCF-7	breast:
5	chr17:16944990..16949876-chr17:16959315..16962454,4	MCF-7	breast:
6	chr17:16958422..16961495-chr17:16962516..16966035,3	MCF-7	breast:
7	chr17:16953800..16956981-chr17:16958258..16961708,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000133030	Chromatin interaction

Extended variants
information (count: 99 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs1047805	0.88[AMR][1000 genomes]
rs10852843	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10852844	0.93[AMR][1000 genomes]
rs10852845	0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10852846	0.88[AMR][1000 genomes]
rs11078364	0.90[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11078365	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11078366	0.90[CHB][hapmap];0.95[ASN][1000 genomes]
rs11078370	0.90[CHB][hapmap];0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11078371	0.93[AMR][1000 genomes]
rs11078372	0.93[AMR][1000 genomes]
rs11078373	0.88[AMR][1000 genomes]
rs11078375	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs1110504	0.93[AMR][1000 genomes]
rs1110505	0.88[AMR][1000 genomes]
rs11651460	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs11651938	0.88[AMR][1000 genomes]
rs11651988	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11652079	0.93[AMR][1000 genomes]
rs11652678	0.88[AMR][1000 genomes]
rs11652756	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11652936	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11654247	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs11654360	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11658084	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11658904	0.90[CHB][hapmap];0.93[ASN][1000 genomes]
rs12450109	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12450213	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12450238	0.95[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12450467	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12451054	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12452303	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12452802	0.93[AMR][1000 genomes]
rs12601325	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs12602124	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12602129	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12602867	0.93[AMR][1000 genomes]
rs16961288	1.00[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16961412	0.90[CHB][hapmap];0.85[AMR][1000 genomes]
rs1877631	0.90[CHB][hapmap]
rs2292526	0.84[AMR][1000 genomes]
rs3744125	0.88[AMR][1000 genomes]
rs3744127	0.88[AMR][1000 genomes]
rs3744132	0.88[AMR][1000 genomes]
rs3744133	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs3744136	0.88[AMR][1000 genomes]
rs3744140	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs3826305	0.86[AMR][1000 genomes]
rs4073940	0.89[CHB][hapmap];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4074611	0.90[CHB][hapmap];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4074612	0.93[AMR][1000 genomes]
rs4074819	0.88[AMR][1000 genomes]
rs4264448	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4275916	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4283273	0.88[AMR][1000 genomes]
rs4321246	0.84[AMR][1000 genomes]
rs4606773	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4621033	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4985695	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4985697	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4985698	0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4985703	0.88[AMR][1000 genomes]
rs4985712	0.90[ASN][1000 genomes]
rs4985714	0.90[CHB][hapmap];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4985715	0.90[CHB][hapmap];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4985719	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4985723	0.89[ASN][1000 genomes]
rs4985727	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4985739	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs4985744	0.93[AMR][1000 genomes]
rs4985747	0.88[AMR][1000 genomes]
rs55751545	0.93[AMR][1000 genomes]
rs56009207	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs57812549	0.90[AMR][1000 genomes]
rs58326998	0.88[AMR][1000 genomes]
rs58472573	0.98[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs58814183	0.80[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59394251	0.88[AMR][1000 genomes]
rs60128647	0.93[AMR][1000 genomes]
rs61018209	0.80[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs7207187	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7210339	0.90[CHB][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7217970	0.90[CHB][hapmap];0.93[AMR][1000 genomes]
rs7223583	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7223686	0.90[CHB][hapmap];0.95[ASN][1000 genomes]
rs7223924	0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73979053	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73979054	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73979058	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs73979060	0.93[AMR][1000 genomes]
rs73979061	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73979081	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73979082	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73979083	0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8064991	0.93[AMR][1000 genomes]
rs8066111	0.88[AMR][1000 genomes]
rs8067563	0.89[CHB][hapmap];0.86[JPT][hapmap];0.82[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs8075751	0.90[CHB][hapmap];0.90[ASN][1000 genomes]
rs9910011	0.90[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11654562	M-RIP	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:16949000-16962000	Enhancers	Fetal Heart	heart
2	chr17:16949000-16966200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr17:16949000-16975200	Weak transcription	K562	blood
4	chr17:16950200-16962600	Weak transcription	Dnd41	blood
5	chr17:16950200-16968200	Enhancers	Psoas Muscle	Psoas
6	chr17:16952600-16996400	Weak transcription	Fetal Brain Male	brain
7	chr17:16953600-16967600	Genic enhancers	Fetal Muscle Trunk	muscle
8	chr17:16953800-16960800	Enhancers	Spleen	Spleen
9	chr17:16953800-16961000	Enhancers	Right Atrium	heart
10	chr17:16953800-16961800	Genic enhancers	A549	lung
11	chr17:16954200-16961000	Enhancers	Stomach Mucosa	stomach
12	chr17:16954200-16962200	Genic enhancers	Fetal Stomach	stomach
13	chr17:16954800-16981200	Weak transcription	H9 Cell Line	embryonic stem cell
14	chr17:16955400-16970200	Weak transcription	NH-A	brain
15	chr17:16955400-16981200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
16	chr17:16956400-16972600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr17:16956600-16960800	Weak transcription	HepG2	liver
18	chr17:16956600-16961400	Weak transcription	GM12878-XiMat	blood
19	chr17:16956600-16965600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
20	chr17:16956600-16966200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
21	chr17:16956800-16966000	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr17:16957000-16962400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr17:16957200-16962800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr17:16957200-16964800	Weak transcription	Primary T helper cells PMA-I stimulated	--
25	chr17:16957200-16965800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr17:16957400-16963200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
27	chr17:16957400-16965000	Weak transcription	Primary B cells from cord blood	blood
28	chr17:16957600-16962200	Enhancers	Colon Smooth Muscle	Colon
29	chr17:16957600-16964000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
30	chr17:16957800-16963800	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr17:16958200-16961000	Enhancers	HSMMtube	muscle
32	chr17:16958400-16960800	Enhancers	Aorta	Aorta
33	chr17:16958400-16961000	Enhancers	Brain Substantia Nigra	brain
34	chr17:16958600-16960800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
35	chr17:16958600-16960800	Enhancers	Esophagus	oesophagus
36	chr17:16958600-16960800	Enhancers	Stomach Smooth Muscle	stomach
37	chr17:16958600-16960800	Enhancers	NHDF-Ad	bronchial
38	chr17:16958600-16961000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr17:16958600-16961000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
40	chr17:16958800-16960800	Genic enhancers	Fetal Lung	lung
41	chr17:16958800-16961600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr17:16958800-16965200	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr17:16959200-16960800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
44	chr17:16959200-16964600	Genic enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
45	chr17:16959200-16965400	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr17:16959200-16966800	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
47	chr17:16959200-16982200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr17:16959400-16960800	Genic enhancers	Gastric	stomach
49	chr17:16959400-16972800	Weak transcription	HUVEC	blood vessel
50	chr17:16959600-16960800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood

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