Variant report

Variant	rs35102009
Chromosome Location	chr3:179679588-179679589
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11917103	0.80[EUR][1000 genomes]
rs11923858	0.87[AMR][1000 genomes]
rs13096827	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs17749273	0.82[EUR][1000 genomes]
rs34985833	0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35040076	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35068209	0.81[EUR][1000 genomes]
rs35362105	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs62290481	0.96[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6795496	0.80[EUR][1000 genomes]
rs6807998	0.80[EUR][1000 genomes]

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	nsv829807	chr3:179527567-179745153	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv829808	chr3:179574614-179754321	Strong transcription Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv534210	chr3:179666123-179899347	Enhancers Bivalent Enhancer Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1000756	chr3:179672703-179827373	Enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:179660600-179680800	Weak transcription	Pancreas	Pancrea
2	chr3:179672200-179679600	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr3:179675200-179679800	Enhancers	Fetal Thymus	thymus
4	chr3:179675800-179688000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr3:179677200-179685000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr3:179677400-179681400	Enhancers	Brain Inferior Temporal Lobe	brain
7	chr3:179677800-179681000	Enhancers	Brain Hippocampus Middle	brain
8	chr3:179677800-179681400	Enhancers	Brain Cingulate Gyrus	brain
9	chr3:179678200-179680000	Weak transcription	Brain Substantia Nigra	brain
10	chr3:179678600-179679800	Flanking Active TSS	GM12878-XiMat	blood
11	chr3:179678800-179680600	Flanking Active TSS	Dnd41	blood
12	chr3:179678800-179681000	Weak transcription	Brain Angular Gyrus	brain
13	chr3:179678800-179682000	Weak transcription	Brain Anterior Caudate	brain
14	chr3:179679000-179679800	Enhancers	Thymus	Thymus
15	chr3:179679200-179679800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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