Variant report

Variant	rs1888239
Chromosome Location	chr7:78390538-78390539
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1015886	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs10227551	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10235632	0.89[EUR][1000 genomes]
rs10237620	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10242552	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10250784	0.89[EUR][1000 genomes]
rs10252524	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10255247	0.99[ASN][1000 genomes]
rs10264296	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10808167	0.93[GIH][hapmap];0.82[TSI][hapmap]
rs1118935	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs1118936	0.93[GIH][hapmap];0.84[TSI][hapmap]
rs11974493	0.96[CEU][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs11980954	0.96[CEU][hapmap];0.94[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13244373	0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13246802	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1330494	0.96[CEU][hapmap];0.91[EUR][1000 genomes]
rs13308578	0.96[CEU][hapmap];0.91[TSI][hapmap];0.90[EUR][1000 genomes]
rs1360302	0.92[CEU][hapmap];0.85[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.87[MEX][hapmap];0.91[TSI][hapmap];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1360303	0.92[ASN][1000 genomes]
rs1888238	0.96[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2003119	0.92[EUR][1000 genomes]
rs2214558	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6951046	0.83[TSI][hapmap]
rs6953482	0.92[CEU][hapmap];0.89[EUR][1000 genomes]
rs6976884	0.92[CEU][hapmap];0.88[EUR][1000 genomes]
rs757395	0.89[GIH][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1022199	chr7:78054639-78469370	Enhancers Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Strong transcription Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv538986	chr7:78054639-78469370	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1019355	chr7:78319575-78399845	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv607657	chr7:78329795-78483211	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78372400-78391600	Weak transcription	Pancreas	Pancrea
2	chr7:78372400-78395200	Weak transcription	Aorta	Aorta
3	chr7:78381200-78393200	Weak transcription	Fetal Heart	heart
4	chr7:78381200-78393600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr7:78386200-78397600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
6	chr7:78388400-78395200	Weak transcription	Brain Cingulate Gyrus	brain
7	chr7:78390000-78391200	Enhancers	Fetal Kidney	kidney
8	chr7:78390200-78390600	Enhancers	Fetal Lung	lung
9	chr7:78390400-78393600	Weak transcription	Pancreatic Islets	Pancreatic Islet

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