Variant report

Variant	rs10237509
Chromosome Location	chr7:78890797-78890798
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 42 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs1015639	0.92[CHB][hapmap]
rs10274885	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.89[EUR][1000 genomes]
rs10280554	1.00[CEU][hapmap];0.92[CHB][hapmap];0.83[JPT][hapmap]
rs10485955	0.84[CHB][hapmap];0.80[CHD][hapmap]
rs10499839	0.81[TSI][hapmap]
rs1071038	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap]
rs10808182	0.87[EUR][1000 genomes]
rs11773085	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes]
rs12706097	1.00[CEU][hapmap];0.85[CHB][hapmap];0.91[JPT][hapmap];0.89[EUR][1000 genomes]
rs1358472	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs1406165	0.86[CEU][hapmap];0.92[CHB][hapmap]
rs1528259	0.86[CEU][hapmap]
rs1528260	0.86[CEU][hapmap];0.92[CHB][hapmap]
rs1528264	1.00[CEU][hapmap];0.92[CHB][hapmap];0.84[JPT][hapmap]
rs1528268	1.00[CEU][hapmap];0.92[CHB][hapmap];0.91[JPT][hapmap];0.81[AFR][1000 genomes];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1528276	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap]
rs1609281	0.89[EUR][1000 genomes]
rs16886524	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.85[JPT][hapmap]
rs17152178	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes]
rs17152192	1.00[CEU][hapmap];0.92[CHB][hapmap];0.85[JPT][hapmap];0.82[EUR][1000 genomes]
rs17237664	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1881298	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1881299	1.00[CEU][hapmap];0.85[JPT][hapmap]
rs1918935	0.92[CHB][hapmap]
rs2190174	0.86[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap]
rs41364851	0.92[CHB][hapmap];0.81[CHD][hapmap]
rs6944731	1.00[CEU][hapmap];0.92[CHB][hapmap];0.84[JPT][hapmap]
rs6954793	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.92[JPT][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes]
rs6964349	0.92[CHB][hapmap]
rs6966599	1.00[CEU][hapmap];0.92[CHB][hapmap];0.88[CHD][hapmap];0.85[JPT][hapmap]
rs6966753	0.92[CHB][hapmap]
rs6974095	1.00[CEU][hapmap];0.92[CHB][hapmap];0.92[JPT][hapmap];0.87[EUR][1000 genomes]
rs73153203	0.84[EUR][1000 genomes]
rs73154930	0.80[EUR][1000 genomes]
rs7778707	0.86[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap]
rs7811833	1.00[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];0.85[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv464598	chr7:78492642-79483480	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
2	nsv607659	chr7:78492642-79483480	Enhancers Bivalent/Poised TSS Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
3	nsv1029799	chr7:78608097-79061737	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv437988	chr7:78806100-78910974	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv831041	chr7:78819499-78973222	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv2764028	chr7:78874740-79112630	Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10237509	MAGI2	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78888400-78898000	Weak transcription	Pancreatic Islets	Pancreatic Islet

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