Variant report

Variant	rs2203763
Chromosome Location	chr1:223476844-223476845
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs1095170	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1341289	0.83[LWK][hapmap];0.82[YRI][hapmap]
rs1341291	1.00[ASW][hapmap];0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.95[LWK][hapmap];0.92[MEX][hapmap];0.82[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1356481	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1356482	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1400961	0.86[YRI][hapmap]
rs1518040	0.83[LWK][hapmap]
rs17161989	0.86[YRI][hapmap]
rs17161993	0.84[ASW][hapmap];0.95[CEU][hapmap];0.87[GIH][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17161994	0.84[ASW][hapmap];0.95[CEU][hapmap];0.87[GIH][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17163762	1.00[ASW][hapmap];0.95[CEU][hapmap];0.87[GIH][hapmap];0.96[MEX][hapmap];0.93[TSI][hapmap];1.00[YRI][hapmap];0.84[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17163767	0.86[YRI][hapmap]
rs17163773	1.00[ASW][hapmap];0.95[CEU][hapmap];0.85[GIH][hapmap];0.95[LWK][hapmap];0.88[MEX][hapmap];0.84[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17163774	1.00[ASW][hapmap];0.91[CEU][hapmap];0.95[LWK][hapmap];0.88[MEX][hapmap];0.88[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17163816	0.80[LWK][hapmap]
rs17163831	0.84[LWK][hapmap]
rs17487717	0.82[LWK][hapmap];0.93[YRI][hapmap]
rs17518279	0.80[GIH][hapmap];0.89[TSI][hapmap];0.91[EUR][1000 genomes]
rs1949441	0.83[LWK][hapmap];0.93[YRI][hapmap]
rs2138970	0.83[LWK][hapmap]
rs2176505	0.82[JPT][hapmap];0.82[LWK][hapmap];0.89[YRI][hapmap]
rs2678367	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2795063	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.95[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs34013846	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs34238669	0.83[LWK][hapmap]
rs34283624	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs34468460	0.82[JPT][hapmap];0.87[LWK][hapmap];0.89[YRI][hapmap]
rs34782082	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs34788475	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs34827745	0.95[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs35133329	0.89[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs35345711	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs41371046	0.91[MKK][hapmap]
rs4661252	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6662301	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7536652	0.82[YRI][hapmap]
rs885279	0.93[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1012537	chr1:222755091-223512243	Weak transcription Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases
2	nsv1000039	chr1:223429733-223527845	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
3	nsv518979	chr1:223468336-223488310	Weak transcription Enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2203763	SUSD4	cis	parietal	SCAN

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223466400-223480400	Weak transcription	Pancreas	Pancrea
2	chr1:223470000-223493200	Weak transcription	Esophagus	oesophagus
3	chr1:223473000-223484400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr1:223475800-223480800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr1:223476000-223482000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
6	chr1:223476200-223480800	Weak transcription	Thymus	Thymus
7	chr1:223476200-223481200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
8	chr1:223476200-223481600	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr1:223476600-223477000	Enhancers	Placenta	Placenta

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