Variant report

Variant	rs9640709
Chromosome Location	chr7:78108565-78108566
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs1075007	0.91[AFR][1000 genomes];0.81[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs11973630	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11977168	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11977779	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12667712	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1978323	0.91[AFR][1000 genomes]
rs2192646	0.96[EUR][1000 genomes]
rs2192647	0.96[EUR][1000 genomes]
rs2215933	0.90[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2362610	0.89[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2362611	0.89[AFR][1000 genomes]
rs34403226	0.88[EUR][1000 genomes]
rs35454028	0.95[EUR][1000 genomes]
rs6466243	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67578259	0.88[EUR][1000 genomes]
rs6950700	0.95[EUR][1000 genomes]
rs6951193	1.00[CEU][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7780645	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7780794	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7784896	0.90[CEU][hapmap];0.96[EUR][1000 genomes]
rs7804602	0.88[EUR][1000 genomes]
rs7804932	0.91[CEU][hapmap];0.95[EUR][1000 genomes]
rs9641412	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs972544	1.00[CEU][hapmap];0.88[CHB][hapmap];0.89[JPT][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs974346	0.94[CHB][hapmap];1.00[JPT][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs974347	0.88[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs975421	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	nsv1022764	chr7:77911072-78316607	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	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
3	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

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:78103000-78117600	Weak transcription	Fetal Brain Female	brain
2	chr7:78103400-78108600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
3	chr7:78103400-78108600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
4	chr7:78103800-78115600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr7:78104400-78116800	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr7:78105600-78113800	Weak transcription	Brain Hippocampus Middle	brain
7	chr7:78106200-78113200	Weak transcription	Brain Anterior Caudate	brain
8	chr7:78106400-78113600	Weak transcription	Brain Substantia Nigra	brain
9	chr7:78106600-78108600	Weak transcription	HSMM	muscle
10	chr7:78106600-78114000	Weak transcription	Brain Cingulate Gyrus	brain
11	chr7:78106600-78117000	Weak transcription	Brain Germinal Matrix	brain
12	chr7:78108000-78109600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr7:78108000-78109600	Enhancers	Fetal Heart	heart
14	chr7:78108200-78108800	Enhancers	H1 Cell Line	embryonic stem cell
15	chr7:78108200-78108800	Enhancers	Ovary	ovary
16	chr7:78108200-78108800	Enhancers	Skeletal Muscle Female	skeletal muscle
17	chr7:78108200-78109000	Enhancers	Psoas Muscle	Psoas
18	chr7:78108200-78109200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr7:78108400-78116800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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