Variant report

Variant	rs7536652
Chromosome Location	chr1:223507965-223507966
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 80 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10495206	0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs10495207	0.83[EUR][1000 genomes]
rs1341289	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs1341291	0.82[YRI][hapmap]
rs1400961	0.90[JPT][hapmap]
rs1518040	0.82[YRI][hapmap];0.83[AFR][1000 genomes]
rs1539047	0.81[AFR][1000 genomes]
rs1547788	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1619227	0.90[CEU][hapmap];0.94[CHB][hapmap];0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1713220	0.90[AMR][1000 genomes]
rs17162008	0.83[EUR][1000 genomes]
rs17163762	0.82[YRI][hapmap]
rs17163773	0.82[YRI][hapmap]
rs17163774	0.82[YRI][hapmap]
rs17163789	0.84[AFR][1000 genomes]
rs17163816	0.82[LWK][hapmap];0.82[YRI][hapmap];0.85[AFR][1000 genomes]
rs17163818	0.89[AFR][1000 genomes]
rs17163824	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17163825	0.82[CEU][hapmap];0.85[CHB][hapmap];0.90[JPT][hapmap];0.95[MEX][hapmap];0.86[TSI][hapmap];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17163828	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17163831	0.90[CEU][hapmap];0.94[CHB][hapmap];0.92[CHD][hapmap];0.97[GIH][hapmap];0.86[LWK][hapmap];0.90[MEX][hapmap];0.86[TSI][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17480087	0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs17480344	0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs17487717	0.84[LWK][hapmap];0.89[YRI][hapmap]
rs17539269	0.81[TSI][hapmap];0.81[EUR][1000 genomes]
rs17539583	0.82[EUR][1000 genomes]
rs17578168	0.82[EUR][1000 genomes]
rs17578203	0.82[EUR][1000 genomes]
rs1829308	0.86[AFR][1000 genomes]
rs1829309	0.86[AFR][1000 genomes]
rs1850562	0.82[AFR][1000 genomes]
rs1935037	0.82[AFR][1000 genomes]
rs1949441	0.81[LWK][hapmap];0.89[YRI][hapmap]
rs2096082	0.82[AFR][1000 genomes]
rs2138970	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs2176504	0.82[AFR][1000 genomes]
rs2176505	0.84[LWK][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs2176506	0.84[AFR][1000 genomes]
rs2203763	0.82[YRI][hapmap]
rs2459849	0.90[AMR][1000 genomes]
rs2487521	0.90[AMR][1000 genomes]
rs2678377	0.90[AMR][1000 genomes]
rs34238669	0.82[YRI][hapmap];0.81[AFR][1000 genomes]
rs34468460	0.84[LWK][hapmap];0.93[YRI][hapmap];0.83[AFR][1000 genomes]
rs34572097	0.85[AFR][1000 genomes]
rs35318812	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3820596	0.90[JPT][hapmap]
rs4661238	0.82[AFR][1000 genomes]
rs4661239	0.82[AFR][1000 genomes]
rs61838210	0.81[EUR][1000 genomes]
rs61838229	0.81[EUR][1000 genomes]
rs61838230	0.82[EUR][1000 genomes]
rs61838231	0.82[EUR][1000 genomes]
rs61838234	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61838235	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs61838236	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61838237	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61838238	0.82[EUR][1000 genomes]
rs61838239	0.82[EUR][1000 genomes]
rs61838240	0.82[EUR][1000 genomes]
rs61838241	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61838243	0.82[EUR][1000 genomes]
rs61838246	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61838249	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61838250	0.84[EUR][1000 genomes]
rs6604709	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs66531524	0.85[AFR][1000 genomes]
rs66768536	0.82[AFR][1000 genomes]
rs66867621	0.84[AFR][1000 genomes]
rs67707169	0.83[AFR][1000 genomes]
rs7541162	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7555607	0.90[CEU][hapmap];0.94[CHB][hapmap];0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs825127	0.89[AFR][1000 genomes]
rs851201	0.85[JPT][hapmap]
rs870486	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs885279	0.90[JPT][hapmap]
rs9442046	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]

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	nsv1010798	chr1:223498145-223538989	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs7536652	SUSD4	cis	cerebellum	SCAN
rs7536652	SUSD4	cis	Heart Left Ventricle	GTEx
rs7536652	SUSD4	cis	parietal	SCAN

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:223497200-223512600	Weak transcription	Pancreas	Pancrea
2	chr1:223497400-223510400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr1:223505200-223509400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
4	chr1:223505600-223511800	Weak transcription	Ovary	ovary
5	chr1:223505600-223512600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr1:223505600-223514800	Weak transcription	Right Atrium	heart
7	chr1:223505600-223521400	Weak transcription	Primary T cells from cord blood	blood
8	chr1:223505800-223513000	Weak transcription	Fetal Lung	lung
9	chr1:223506600-223526000	Weak transcription	Esophagus	oesophagus
10	chr1:223506800-223509800	Weak transcription	Fetal Heart	heart

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