Variant report

Variant	rs6989237
Chromosome Location	chr8:50222788-50222789
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 188 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:178)

rs_ID	r²[population]
rs1026802	0.85[ASN][1000 genomes]
rs1031927	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10957378	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1124263	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11774357	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11777418	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11778908	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11780027	0.91[ASN][1000 genomes]
rs11780058	0.86[ASN][1000 genomes]
rs11782068	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11783895	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12056361	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12541755	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs12542007	0.89[ASN][1000 genomes]
rs12542224	0.80[ASN][1000 genomes]
rs12542327	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12542454	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.80[ASN][1000 genomes]
rs12544125	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12544632	0.93[ASN][1000 genomes]
rs12544636	0.91[ASN][1000 genomes]
rs12544640	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12544885	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12544912	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12545405	0.80[ASN][1000 genomes]
rs12546666	0.87[ASN][1000 genomes]
rs12546677	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12547032	0.80[ASN][1000 genomes]
rs12547148	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12548013	0.87[ASN][1000 genomes]
rs12549218	0.80[ASN][1000 genomes]
rs12549226	0.80[ASN][1000 genomes]
rs12549580	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12549733	0.85[ASN][1000 genomes]
rs12550543	0.87[ASN][1000 genomes]
rs12550595	0.87[ASN][1000 genomes]
rs13248609	0.87[ASN][1000 genomes]
rs13249419	0.87[ASN][1000 genomes]
rs13253427	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13257469	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13260469	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13263498	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13266232	0.91[ASN][1000 genomes]
rs13266361	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13267457	0.80[ASN][1000 genomes]
rs13267460	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13267637	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13268333	0.91[ASN][1000 genomes]
rs13268457	0.80[ASN][1000 genomes]
rs13269101	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13269574	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13270612	0.80[ASN][1000 genomes]
rs13273001	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13274211	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13274277	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13275513	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13275747	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13276169	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13276660	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13276744	0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13276914	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13277014	0.91[ASN][1000 genomes]
rs13277191	0.84[ASN][1000 genomes]
rs13277298	0.88[ASN][1000 genomes]
rs13277872	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13282143	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs13282557	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1480395	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1480396	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1480397	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1564429	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs17646448	0.87[ASN][1000 genomes]
rs17663560	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17663703	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17663727	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17664982	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17718911	0.84[ASN][1000 genomes]
rs17719068	0.87[ASN][1000 genomes]
rs17719132	0.86[ASN][1000 genomes]
rs17719461	0.87[ASN][1000 genomes]
rs17720676	0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17721300	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17721360	0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1842405	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2046075	0.84[ASN][1000 genomes]
rs2061954	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2061955	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2061956	0.82[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2061957	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2127682	0.81[ASN][1000 genomes]
rs2127683	0.82[ASN][1000 genomes]
rs2170191	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2170192	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2170193	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2385323	0.87[ASN][1000 genomes]
rs2385326	0.84[ASN][1000 genomes]
rs33999498	0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34063508	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34244111	0.91[ASN][1000 genomes]
rs34257797	0.80[ASN][1000 genomes]
rs34276168	0.92[ASN][1000 genomes]
rs34289062	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs34469126	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34550655	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs34806739	0.80[ASN][1000 genomes]
rs34838515	0.88[ASN][1000 genomes]
rs34853607	0.91[ASN][1000 genomes]
rs34912035	0.91[ASN][1000 genomes]
rs34970585	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs34985645	0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35071269	0.92[ASN][1000 genomes]
rs35157108	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35232475	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35271168	0.80[ASN][1000 genomes]
rs35301703	0.91[ASN][1000 genomes]
rs35333021	0.91[ASN][1000 genomes]
rs35346146	0.89[ASN][1000 genomes]
rs35347194	0.91[ASN][1000 genomes]
rs35386167	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35404013	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35435104	0.91[ASN][1000 genomes]
rs35521193	0.92[ASN][1000 genomes]
rs35590399	0.91[ASN][1000 genomes]
rs35629336	0.88[ASN][1000 genomes]
rs35699355	1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs35699802	0.91[ASN][1000 genomes]
rs35758897	0.91[ASN][1000 genomes]
rs35892058	0.88[ASN][1000 genomes]
rs35897910	0.91[ASN][1000 genomes]
rs36075037	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4242453	0.84[ASN][1000 genomes]
rs4307358	0.87[ASN][1000 genomes]
rs4587347	0.87[ASN][1000 genomes]
rs4617168	0.84[ASN][1000 genomes]
rs4873103	0.87[ASN][1000 genomes]
rs4873104	0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4873105	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4873324	0.82[ASN][1000 genomes]
rs4873326	0.87[ASN][1000 genomes]
rs4873327	0.81[ASN][1000 genomes]
rs4873328	0.87[ASN][1000 genomes]
rs4873329	0.84[ASN][1000 genomes]
rs4873330	0.82[ASN][1000 genomes]
rs4873332	0.86[ASN][1000 genomes]
rs4873333	0.87[ASN][1000 genomes]
rs4873334	0.86[ASN][1000 genomes]
rs4873335	0.87[ASN][1000 genomes]
rs4873337	0.92[ASN][1000 genomes]
rs4873351	0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5018705	0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs55988401	0.87[ASN][1000 genomes]
rs57184728	0.91[ASN][1000 genomes]
rs57293678	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs62507357	0.91[ASN][1000 genomes]
rs62508669	0.93[ASN][1000 genomes]
rs62508670	0.93[ASN][1000 genomes]
rs62508713	0.85[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs62508991	0.80[ASN][1000 genomes]
rs62509029	0.87[ASN][1000 genomes]
rs62509030	0.87[ASN][1000 genomes]
rs6472284	0.86[ASN][1000 genomes]
rs6651279	0.90[ASN][1000 genomes]
rs6651281	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6651309	0.80[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6651310	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6651311	0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6651312	0.81[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6981154	0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6990871	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6992674	0.87[ASN][1000 genomes]
rs7001744	0.87[ASN][1000 genomes]
rs7001907	0.87[ASN][1000 genomes]
rs7007122	0.84[ASN][1000 genomes]
rs7007136	0.87[ASN][1000 genomes]
rs7008555	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7462674	0.85[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7814401	0.87[ASN][1000 genomes]
rs7835937	0.87[ASN][1000 genomes]
rs9643586	0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1025068	chr8:49953397-50370208	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
2	nsv1034908	chr8:50023423-50416049	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv539601	chr8:50023423-50416049	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1024410	chr8:50037085-50511501	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv428517	chr8:50094920-50232993	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv890855	chr8:50109365-50252962	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv890856	chr8:50133485-50272497	Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv890857	chr8:50133485-50469764	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
9	nsv917031	chr8:50207246-50709286	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv890858	chr8:50219675-50532935	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6989237	SNTG1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:50221600-50222800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr8:50222600-50223000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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