Variant report

Variant	rs7869625
Chromosome Location	chr9:104075766-104075767
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10125731	1.00[CHB][hapmap];0.90[JPT][hapmap];0.95[ASN][1000 genomes]
rs10512279	0.94[CHB][hapmap];0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs10989462	0.85[JPT][hapmap]
rs10989469	0.84[ASN][1000 genomes]
rs10989471	0.94[CHB][hapmap];0.95[JPT][hapmap];0.86[ASN][1000 genomes]
rs11790209	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.80[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11790501	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11792655	0.95[CEU][hapmap];0.94[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12341316	0.84[JPT][hapmap]
rs12553209	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12553507	0.94[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12683393	1.00[CHB][hapmap];0.95[JPT][hapmap];0.95[ASN][1000 genomes]
rs12683674	0.86[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12684829	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs13289023	0.84[JPT][hapmap]
rs13296052	0.84[JPT][hapmap]
rs1341769	0.94[CHB][hapmap];0.89[JPT][hapmap];0.83[ASN][1000 genomes]
rs1891219	0.95[CEU][hapmap];0.94[CHB][hapmap];0.85[JPT][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1935240	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2275683	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs34553293	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs35846126	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3780531	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3944892	0.84[JPT][hapmap]
rs4480176	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6479049	0.94[CHB][hapmap];0.94[JPT][hapmap];0.95[ASN][1000 genomes]
rs7023477	0.84[JPT][hapmap]
rs7023799	0.95[ASN][1000 genomes]
rs7034058	0.84[JPT][hapmap]
rs7035407	0.84[JPT][hapmap]
rs7040055	0.94[ASN][1000 genomes]
rs7848242	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7861116	0.97[ASN][1000 genomes]
rs7868832	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037157	chr9:104045761-104149233	Enhancers Active TSS Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv1049740	chr9:104049624-104075825	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104072400-104075800	Enhancers	Brain Hippocampus Middle	brain
2	chr9:104073000-104088600	Weak transcription	Brain Cingulate Gyrus	brain
3	chr9:104073800-104082600	Weak transcription	Brain Anterior Caudate	brain
4	chr9:104074200-104080800	Enhancers	Liver	Liver
5	chr9:104074400-104081200	Weak transcription	Brain Substantia Nigra	brain
6	chr9:104074600-104077200	Weak transcription	A549	lung
7	chr9:104074800-104075800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr9:104075200-104076600	Genic enhancers	HepG2	liver
9	chr9:104075400-104077600	Weak transcription	Fetal Lung	lung
10	chr9:104075400-104077600	Weak transcription	HSMMtube	muscle
11	chr9:104075400-104079600	Weak transcription	Fetal Brain Female	brain
12	chr9:104075600-104077600	Weak transcription	Fetal Muscle Leg	muscle
13	chr9:104075600-104079400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
14	chr9:104075600-104079800	Weak transcription	Fetal Brain Male	brain
15	chr9:104075600-104081800	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr9:104075600-104088600	Weak transcription	Brain Germinal Matrix	brain

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