Variant report

Variant	rs1865860
Chromosome Location	chr3:78807603-78807604
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10049014	0.83[CEU][hapmap]
rs10428105	0.84[CEU][hapmap]
rs11914618	0.84[CEU][hapmap]
rs11920344	0.85[CEU][hapmap]
rs11925970	0.81[CEU][hapmap]
rs11928868	0.89[CEU][hapmap]
rs1395784	0.89[CEU][hapmap]
rs1457659	0.85[CEU][hapmap];0.83[JPT][hapmap]
rs17016466	0.89[CEU][hapmap]
rs17311169	0.82[JPT][hapmap];0.85[YRI][hapmap]
rs17375110	0.89[CEU][hapmap]
rs17375496	0.89[CEU][hapmap]
rs17375739	0.89[CEU][hapmap]
rs1865861	1.00[CEU][hapmap];0.86[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1865863	0.95[CEU][hapmap];0.80[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1961636	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2271151	0.89[CEU][hapmap]
rs333483	0.82[JPT][hapmap]
rs333506	0.82[JPT][hapmap]
rs333507	0.82[JPT][hapmap]
rs35077320	0.84[ASN][1000 genomes]
rs3732663	0.85[CEU][hapmap]
rs3773226	0.85[CEU][hapmap]
rs3773231	0.83[CEU][hapmap]
rs3773234	0.89[CEU][hapmap];0.83[JPT][hapmap];0.82[EUR][1000 genomes]
rs3773239	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs3773240	0.90[CEU][hapmap];0.84[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3773245	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3821601	0.85[CEU][hapmap]
rs3821602	0.86[JPT][hapmap];0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3821603	0.89[CEU][hapmap];0.83[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4263256	0.85[CEU][hapmap]
rs4681013	0.83[JPT][hapmap]
rs56077922	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs57046576	0.84[ASN][1000 genomes]
rs58423115	0.82[EUR][1000 genomes]
rs59263997	0.84[ASN][1000 genomes]
rs6548595	0.95[JPT][hapmap];1.00[YRI][hapmap];0.86[AFR][1000 genomes];0.80[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs66496525	0.84[ASN][1000 genomes]
rs66528054	0.84[ASN][1000 genomes]
rs6769933	0.84[CEU][hapmap]
rs67703869	0.84[ASN][1000 genomes]
rs6787349	0.85[CEU][hapmap]
rs6788434	0.89[CEU][hapmap]
rs6788511	0.85[CEU][hapmap]
rs72892461	0.84[ASN][1000 genomes]
rs73109772	0.81[EUR][1000 genomes]
rs73109774	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs73113488	0.83[ASN][1000 genomes]
rs7610686	0.89[CEU][hapmap]
rs7613490	0.89[CEU][hapmap]
rs7616495	0.85[CEU][hapmap]
rs7622194	0.85[CEU][hapmap]
rs7650002	0.81[JPT][hapmap]
rs7653782	0.84[CEU][hapmap]
rs767182	0.89[CEU][hapmap]
rs9808950	0.81[CEU][hapmap]
rs9823359	0.84[CEU][hapmap]
rs9861603	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9866912	0.94[CEU][hapmap];0.89[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9880072	0.89[CEU][hapmap]
rs9880316	0.85[CEU][hapmap]
rs9882811	0.84[CEU][hapmap]
rs997274	0.85[CEU][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	nsv1010804	chr3:78739648-79087470	Enhancers Flanking Active TSS Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv533681	chr3:78750924-79017336	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	esv2753211	chr3:78784269-78809116	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv822149	chr3:78807515-78809579	Weak transcription Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:78787400-78814800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr3:78798600-78810200	Weak transcription	Fetal Lung	lung
3	chr3:78802200-78810200	Weak transcription	Fetal Stomach	stomach
4	chr3:78803800-78814800	Weak transcription	NHDF-Ad	bronchial
5	chr3:78804400-78814400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:78804600-78808000	Weak transcription	Pancreas	Pancrea
7	chr3:78804800-78808200	Weak transcription	HepG2	liver
8	chr3:78806400-78808000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr3:78806400-78808000	Enhancers	Brain Substantia Nigra	brain
10	chr3:78806600-78808400	Enhancers	Brain Hippocampus Middle	brain
11	chr3:78807000-78811000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr3:78807000-78813600	Weak transcription	Fetal Brain Male	brain
13	chr3:78807200-78808000	Enhancers	Brain Angular Gyrus	brain
14	chr3:78807200-78808200	Enhancers	Brain Cingulate Gyrus	brain
15	chr3:78807200-78811000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr3:78807200-78814600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:78807200-78814800	Weak transcription	Brain Anterior Caudate	brain
18	chr3:78807600-78815200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin

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