Variant report

Variant	rs17075733
Chromosome Location	chr8:5870417-5870418
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 103 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10097181	0.92[ASN][1000 genomes]
rs10503349	0.91[ASN][1000 genomes]
rs11988358	0.92[ASN][1000 genomes]
rs11988390	0.92[ASN][1000 genomes]
rs11997454	0.92[ASN][1000 genomes]
rs12056863	0.92[ASN][1000 genomes]
rs1424735	0.82[ASN][1000 genomes]
rs1469185	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1469188	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17075758	0.93[ASN][1000 genomes]
rs17366510	0.88[EUR][1000 genomes]
rs17457393	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1834200	0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1920458	0.89[EUR][1000 genomes]
rs2141639	0.82[ASN][1000 genomes]
rs2464402	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2494415	0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2552249	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2552250	0.82[ASN][1000 genomes]
rs2552252	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2552253	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2552254	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2552255	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2552257	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2552258	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2552259	0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2552261	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2700732	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2700733	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2700735	0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2700736	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2700737	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2700741	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2703194	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703195	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703202	0.82[ASN][1000 genomes]
rs2703203	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703204	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703206	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703207	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2703208	0.83[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703210	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2703211	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2703212	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703213	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703214	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2703215	0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2703217	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2703219	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2703220	0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2703221	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2703222	0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2703223	0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2703225	0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2703226	0.91[ASN][1000 genomes]
rs2816480	0.82[ASN][1000 genomes]
rs2816481	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2816491	0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2816492	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs2816493	0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2816496	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2840408	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2840410	0.96[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2840411	0.81[ASN][1000 genomes]
rs2840414	0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2840431	0.99[ASN][1000 genomes]
rs2840432	0.97[ASN][1000 genomes]
rs2840433	0.98[ASN][1000 genomes]
rs28577257	0.91[ASN][1000 genomes]
rs28668564	0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35095817	0.93[ASN][1000 genomes]
rs3921194	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3926404	0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4875674	0.93[ASN][1000 genomes]
rs60942918	0.84[EUR][1000 genomes]
rs6559074	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:27 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422369	chr8:5485603-6124928	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv609912	chr8:5573376-6063569	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1028876	chr8:5607076-6210460	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv498091	chr8:5670252-6224305	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv890014	chr8:5693520-5871397	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
6	nsv1023355	chr8:5697207-6210541	Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv539420	chr8:5697207-6210541	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
8	nsv890020	chr8:5719971-5916504	Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv916121	chr8:5726911-5912426	Bivalent Enhancer Enhancers Flanking Active TSS Weak transcription Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
10	nsv465431	chr8:5745852-6248244	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
11	nsv609974	chr8:5745852-6248244	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
12	nsv1017861	chr8:5778767-6027940	Enhancers ZNF genes & repeats Genic enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv609977	chr8:5778862-5881179	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv890022	chr8:5784490-5939724	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
15	nsv1027092	chr8:5784518-6021788	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
16	nsv539426	chr8:5784518-6021788	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
17	nsv1031618	chr8:5790102-6046660	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
18	nsv1017562	chr8:5792484-6018183	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
19	nsv890025	chr8:5818412-6055638	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
20	esv34065	chr8:5824905-6143052	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
21	nsv1031723	chr8:5829711-5966081	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
22	nsv890027	chr8:5830891-5981804	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
23	nsv890028	chr8:5839103-5923666	Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
24	nsv442088	chr8:5854296-5950848	Enhancers Active TSS Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
25	nsv1022005	chr8:5857354-5876060	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
26	esv2761402	chr8:5864854-5873093	Enhancers Weak transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
27	nsv1017522	chr8:5868800-5898095	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs17075733	GLRX3	trans	cerebellum	SCAN
rs17075733	DEFA5	cis	parietal	SCAN
rs17075733	CLDN23	cis	cerebellum	SCAN
rs17075733	XKR5	cis	cerebellum	SCAN
rs17075733	ERI1	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:5866200-5875000	Weak transcription	Hela-S3	cervix

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