Variant report

Variant	rs935520
Chromosome Location	chr3:143404979-143404980
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs10513216	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10935500	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs1242054	0.83[CHB][hapmap];0.92[JPT][hapmap];0.90[ASN][1000 genomes]
rs1242057	0.90[ASN][1000 genomes]
rs12629688	0.82[CHB][hapmap];0.91[JPT][hapmap];0.81[ASN][1000 genomes]
rs13059265	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1345170	0.83[CHB][hapmap];0.91[JPT][hapmap];0.88[ASN][1000 genomes]
rs1447741	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1534162	0.84[CHB][hapmap]
rs16853999	0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs16854008	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1868174	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1868175	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1868177	0.95[ASN][1000 genomes]
rs2121777	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4839649	0.84[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs4839650	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4839651	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs57630925	0.90[ASN][1000 genomes]
rs57917966	0.90[ASN][1000 genomes]
rs58441250	0.90[ASN][1000 genomes]
rs58652978	0.90[ASN][1000 genomes]
rs60098452	0.90[ASN][1000 genomes]
rs60428559	0.88[ASN][1000 genomes]
rs60633318	0.90[ASN][1000 genomes]
rs60891486	0.95[ASN][1000 genomes]
rs61645302	0.90[ASN][1000 genomes]
rs62269851	0.88[ASN][1000 genomes]
rs62269855	0.90[ASN][1000 genomes]
rs62269856	0.90[ASN][1000 genomes]
rs62270560	0.90[ASN][1000 genomes]
rs6440181	0.83[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs6774032	0.86[CEU][hapmap];0.82[JPT][hapmap]
rs6782154	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6786893	0.80[EUR][1000 genomes]
rs6786896	0.80[EUR][1000 genomes]
rs6803893	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7629784	0.90[ASN][1000 genomes]
rs7629855	0.90[ASN][1000 genomes]
rs7650371	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs7650396	0.97[ASN][1000 genomes]
rs935519	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9831286	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9844600	0.97[ASN][1000 genomes]
rs9882472	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][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	nsv949288	chr3:142793323-143585882	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv829745	chr3:143278512-143405626	Weak transcription Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv877566	chr3:143397740-143421221	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:143370800-143420800	Weak transcription	Primary T cells from cord blood	blood
2	chr3:143394200-143470200	Weak transcription	Primary B cells from cord blood	blood
3	chr3:143396000-143408400	Weak transcription	Aorta	Aorta
4	chr3:143401000-143409400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr3:143402200-143405000	Enhancers	Pancreatic Islets	Pancreatic Islet
6	chr3:143403400-143416800	Weak transcription	Brain Inferior Temporal Lobe	brain
7	chr3:143404400-143405000	Enhancers	Fetal Stomach	stomach
8	chr3:143404600-143406200	Enhancers	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links