Variant report

Variant	rs12519864
Chromosome Location	chr5:35667089-35667090
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs10043875	0.82[CEU][hapmap];0.90[TSI][hapmap]
rs1013154	0.90[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs10805608	0.90[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs10941256	0.90[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs11957765	0.90[CHB][hapmap];0.85[JPT][hapmap];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12655830	0.90[CHB][hapmap];0.90[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16902391	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.83[MKK][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16902406	0.82[CEU][hapmap];0.90[CHB][hapmap];0.85[CHD][hapmap];0.95[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs16902416	0.88[ASN][1000 genomes]
rs34708521	1.00[EUR][1000 genomes]
rs4072772	0.82[CEU][hapmap];0.90[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4131256	0.82[CEU][hapmap]
rs4869619	0.82[TSI][hapmap]
rs4869631	0.82[TSI][hapmap]
rs62351872	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62351874	0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs62351876	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6451212	0.82[CEU][hapmap];1.00[TSI][hapmap]
rs6451216	0.82[TSI][hapmap]
rs6894157	0.86[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs6895801	0.82[TSI][hapmap]
rs7444574	0.90[CHB][hapmap];0.90[JPT][hapmap];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7444621	0.90[CHB][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs7447258	0.82[TSI][hapmap]
rs7705331	0.90[CHB][hapmap];0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs7710284	0.90[CHB][hapmap];0.81[CHD][hapmap];0.90[JPT][hapmap];0.88[ASN][1000 genomes]
rs7736028	0.82[TSI][hapmap]
rs903392	0.95[CHB][hapmap];0.90[JPT][hapmap];0.89[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	nsv525477	chr5:35530905-35792990	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv880510	chr5:35659239-35709184	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv881146	chr5:35659239-35714851	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:35618600-35678000	Weak transcription	Left Ventricle	heart
2	chr5:35630600-35707600	Weak transcription	Pancreas	Pancrea
3	chr5:35634800-35673200	Weak transcription	Brain Anterior Caudate	brain
4	chr5:35642600-35673000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr5:35645200-35673600	Weak transcription	Fetal Kidney	kidney
6	chr5:35651200-35673000	Weak transcription	Ovary	ovary
7	chr5:35656400-35670600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr5:35657400-35673000	Weak transcription	Fetal Heart	heart
9	chr5:35663000-35669800	Weak transcription	Liver	Liver
10	chr5:35665400-35669000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr5:35665400-35669200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr5:35665400-35671000	Weak transcription	Primary hematopoietic stem cells	blood
13	chr5:35665600-35667200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
14	chr5:35665600-35668200	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr5:35665600-35668600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr5:35665600-35668600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
17	chr5:35665600-35669000	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr5:35665600-35669000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr5:35665600-35677800	Weak transcription	Primary monocytes fromperipheralblood	blood
20	chr5:35665800-35669600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr5:35665800-35670200	Weak transcription	Dnd41	blood
22	chr5:35666000-35668800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
23	chr5:35666000-35669000	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
24	chr5:35666800-35667800	Strong transcription	Fetal Lung	lung
25	chr5:35667000-35667400	Enhancers	Primary T cells from cord blood	blood
26	chr5:35667000-35667400	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr5:35667000-35668600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links