Variant report

Variant	rs9890142
Chromosome Location	chr17:46487150-46487151
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 136 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:136)

rs_ID	r²[population]
rs11079818	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11655672	0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12150117	0.94[ASN][1000 genomes]
rs12449653	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12450014	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12450081	0.85[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12450786	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12450935	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12451412	0.91[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12452212	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12452234	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12453208	0.85[AFR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12937965	0.84[AFR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12938032	0.88[ASN][1000 genomes]
rs12938640	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12939680	0.94[ASN][1000 genomes]
rs12940162	0.94[ASN][1000 genomes]
rs12940365	0.92[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12940931	0.81[ASN][1000 genomes]
rs12941754	0.81[ASN][1000 genomes]
rs12941877	0.94[ASN][1000 genomes]
rs12941926	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12943082	0.85[ASN][1000 genomes]
rs12944592	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12946636	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12948017	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12948086	0.96[ASN][1000 genomes]
rs12948128	0.89[ASN][1000 genomes]
rs12950325	0.85[ASN][1000 genomes]
rs12952824	0.94[ASN][1000 genomes]
rs12953245	0.87[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1553749	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1553751	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1553752	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1553753	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16955397	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17621199	0.85[ASN][1000 genomes]
rs17621297	0.85[ASN][1000 genomes]
rs17621707	0.89[ASN][1000 genomes]
rs17623154	0.91[ASN][1000 genomes]
rs17623482	0.93[ASN][1000 genomes]
rs17694192	0.83[ASN][1000 genomes]
rs17694895	0.89[ASN][1000 genomes]
rs17696503	0.94[ASN][1000 genomes]
rs17696640	0.94[ASN][1000 genomes]
rs1912153	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1912154	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2056458	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2084881	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2175158	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34466582	0.94[ASN][1000 genomes]
rs35003027	0.94[ASN][1000 genomes]
rs35509644	0.91[ASN][1000 genomes]
rs35533148	0.96[ASN][1000 genomes]
rs35759756	0.94[ASN][1000 genomes]
rs4128439	0.89[ASN][1000 genomes]
rs4131712	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4261589	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4312351	0.88[AFR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4451990	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4556829	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs5000249	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs56146024	0.96[ASN][1000 genomes]
rs62064554	0.90[AFR][1000 genomes];0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62067799	0.88[ASN][1000 genomes]
rs6504135	0.81[ASN][1000 genomes]
rs6504145	0.83[ASN][1000 genomes]
rs6504158	0.89[AFR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6504172	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6504203	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7206951	0.91[ASN][1000 genomes]
rs7207826	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7207928	0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7209043	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7209522	0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7209556	0.81[ASN][1000 genomes]
rs7209855	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7210445	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7210708	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7211607	0.82[ASN][1000 genomes]
rs7212149	0.91[AFR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7212930	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7213513	0.89[AFR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7214589	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7215143	0.89[ASN][1000 genomes]
rs7216971	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7217025	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7217120	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7218345	0.92[AFR][1000 genomes];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7218848	0.94[ASN][1000 genomes]
rs7219816	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7219985	0.86[AFR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7221770	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7222452	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7222593	0.81[ASN][1000 genomes]
rs7224686	0.94[ASN][1000 genomes]
rs7225998	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8065115	0.81[ASN][1000 genomes]
rs8065385	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8065535	0.83[ASN][1000 genomes]
rs8067953	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8068128	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8068397	0.86[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8068623	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs8069900	0.89[ASN][1000 genomes]
rs8072521	0.94[ASN][1000 genomes]
rs8073888	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8074212	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs8074443	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8076655	0.89[ASN][1000 genomes]
rs8078038	0.89[AFR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8078999	0.94[ASN][1000 genomes]
rs8082009	0.88[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9303542	0.89[AFR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9747133	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9890488	0.89[AFR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9891073	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9891635	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9894812	0.87[AFR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9895123	0.87[AFR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9895985	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9897162	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9897588	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9898988	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9899213	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9900511	0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9901279	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9905220	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9905961	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9906193	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9906651	0.85[AFR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9907699	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9909002	0.89[AFR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9909872	0.89[AFR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9910535	0.89[AFR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9916227	0.89[AFR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9890142	SKAP1	Cis_1M	lymphoblastoid	RTeQTL
rs9890142	HOXB2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:22 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46485000-46491200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr17:46485200-46487400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr17:46485200-46488800	Weak transcription	Primary B cells from peripheral blood	blood
4	chr17:46485400-46487400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
5	chr17:46485400-46487400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr17:46485400-46488600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr17:46485400-46488800	Weak transcription	GM12878-XiMat	blood
8	chr17:46485800-46489800	Genic enhancers	Primary T regulatory cells fromperipheralblood	blood
9	chr17:46486000-46488000	Genic enhancers	Primary T cells from cord blood	blood
10	chr17:46486000-46488000	Genic enhancers	Primary T helper cells fromperipheralblood	blood
11	chr17:46486000-46489800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
12	chr17:46486200-46487400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr17:46486200-46488600	Genic enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr17:46486200-46489200	Strong transcription	Fetal Thymus	thymus
15	chr17:46486400-46487600	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr17:46486400-46488000	Genic enhancers	Primary T helper cells PMA-I stimulated	--
17	chr17:46486600-46488600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
18	chr17:46486800-46488800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
19	chr17:46486800-46489000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
20	chr17:46486800-46489800	Genic enhancers	Primary T cells fromperipheralblood	blood
21	chr17:46486800-46503000	Weak transcription	Thymus	Thymus
22	chr17:46487000-46487800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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