Variant report

Variant	rs4416359
Chromosome Location	chr3:111499856-111499857
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10934102	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs10934103	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs13071304	0.94[EUR][1000 genomes]
rs13085147	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs13090883	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs17423699	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs17424287	1.00[CEU][hapmap];0.90[EUR][1000 genomes]
rs34307743	0.86[EUR][1000 genomes]
rs34444935	0.86[EUR][1000 genomes]
rs3922703	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3922705	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4234403	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs4234405	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4308247	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs4349472	1.00[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4373040	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4405880	0.94[EUR][1000 genomes]
rs4429600	1.00[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4438630	0.94[EUR][1000 genomes]
rs4546124	1.00[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4642091	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs4645114	1.00[CEU][hapmap];0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4682058	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs4682059	0.80[CEU][hapmap];0.94[EUR][1000 genomes]
rs4682060	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs4682061	0.94[EUR][1000 genomes]
rs4682304	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs4682306	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs4682307	0.85[CEU][hapmap];0.94[EUR][1000 genomes]
rs4682308	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs4682309	0.85[EUR][1000 genomes]
rs4682311	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4682315	0.82[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6438005	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs66499316	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6762439	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6763624	1.00[CEU][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs6768626	1.00[CEU][hapmap];0.96[EUR][1000 genomes]
rs6777990	0.92[EUR][1000 genomes]
rs6780845	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs6782894	1.00[CEU][hapmap]
rs6786443	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6791845	1.00[CEU][hapmap]
rs6804906	0.94[EUR][1000 genomes]
rs6807045	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs68097220	0.96[EUR][1000 genomes]
rs7632963	0.94[EUR][1000 genomes]
rs7633037	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7637178	0.88[CEU][hapmap];0.94[EUR][1000 genomes]
rs7640556	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7641533	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs9288929	0.94[EUR][1000 genomes]
rs9631450	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs9850851	0.89[CEU][hapmap];0.94[EUR][1000 genomes]
rs9968124	0.90[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	nsv460821	chr3:110637471-111501097	Enhancers Active TSS Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv591275	chr3:110637471-111501097	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
3	nsv829676	chr3:111464087-111619200	Genic enhancers Strong transcription Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 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	chr3:111487800-111521000	Weak transcription	Gastric	stomach
2	chr3:111488000-111501400	Weak transcription	Psoas Muscle	Psoas
3	chr3:111489400-111500600	Weak transcription	Fetal Lung	lung
4	chr3:111493400-111500800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr3:111495200-111500200	Weak transcription	Stomach Mucosa	stomach
6	chr3:111496000-111514000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
7	chr3:111496200-111500600	Weak transcription	A549	lung
8	chr3:111496400-111501200	Weak transcription	Fetal Intestine Large	intestine
9	chr3:111497200-111500200	Weak transcription	Pancreatic Islets	Pancreatic Islet
10	chr3:111497400-111501400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
11	chr3:111497800-111500200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
12	chr3:111499000-111518800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr3:111499400-111501800	Enhancers	Fetal Heart	heart
14	chr3:111499400-111504000	Enhancers	Liver	Liver
15	chr3:111499800-111500600	Weak transcription	HepG2	liver

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