Variant report

Variant	rs1520859
Chromosome Location	chr2:190197961-190197962
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:190190556..190194601-chr2:190194832..190198444,3	K562	blood:

Extended variants
information (count: 104 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:101)

rs_ID	r²[population]
rs10187060	0.85[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap]
rs10198663	0.82[YRI][hapmap]
rs10497700	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs10497703	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs10755004	1.00[CEU][hapmap];0.90[CHB][hapmap];0.87[JPT][hapmap];0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10931414	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10931415	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10931416	0.94[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10931418	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10931419	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1112578	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1157910	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap];0.84[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs11677066	0.96[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11678414	0.80[CHB][hapmap]
rs11681286	0.81[EUR][1000 genomes]
rs11688021	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11691604	0.80[CHB][hapmap];0.91[JPT][hapmap]
rs11691691	0.92[AMR][1000 genomes]
rs11695159	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12105389	0.89[CEU][hapmap];0.87[JPT][hapmap]
rs12612412	0.92[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12613876	0.82[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.82[YRI][hapmap]
rs12616234	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12621939	0.83[EUR][1000 genomes]
rs12623723	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12988143	0.95[CHB][hapmap];0.86[JPT][hapmap]
rs12990035	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12990235	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12993719	0.81[EUR][1000 genomes]
rs12997620	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12999122	0.84[EUR][1000 genomes]
rs12999996	0.81[EUR][1000 genomes]
rs13004187	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13004722	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13010531	1.00[CEU][hapmap];0.95[CHB][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes]
rs13011374	0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs13011485	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13015203	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs13015283	0.88[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.84[EUR][1000 genomes]
rs13016231	0.84[EUR][1000 genomes]
rs13021508	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13022633	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13031211	0.92[CEU][hapmap];0.84[CHB][hapmap];0.90[JPT][hapmap];0.80[EUR][1000 genomes]
rs13031549	0.82[CEU][hapmap];0.80[CHB][hapmap];0.91[JPT][hapmap]
rs13032853	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13033841	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1356162	0.81[EUR][1000 genomes]
rs1356164	0.89[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap]
rs1356165	0.92[CEU][hapmap];0.84[CHB][hapmap];0.95[JPT][hapmap]
rs1356167	0.89[CEU][hapmap]
rs1356168	0.92[CEU][hapmap]
rs1356977	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1399991	0.89[CEU][hapmap];0.80[CHB][hapmap];0.86[JPT][hapmap]
rs1402368	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1520855	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1520857	1.00[CEU][hapmap];0.90[CHB][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1520863	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1520864	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1568334	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1581351	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1851105	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1866605	0.82[YRI][hapmap]
rs1878085	0.83[EUR][1000 genomes]
rs1949484	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1949604	0.88[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1949605	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1965422	0.85[CEU][hapmap];0.86[JPT][hapmap]
rs2138374	0.88[CEU][hapmap]
rs2222256	0.84[EUR][1000 genomes]
rs2304703	0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs2351636	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3914778	0.84[EUR][1000 genomes]
rs4287797	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4353589	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4666774	0.92[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4667264	0.89[CEU][hapmap]
rs4667265	0.89[CEU][hapmap]
rs4667272	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4667274	0.88[EUR][1000 genomes]
rs4667276	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4667277	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4667281	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4667284	0.81[JPT][hapmap]
rs4998559	0.89[CEU][hapmap];0.80[CHB][hapmap];0.91[JPT][hapmap]
rs60124911	0.83[EUR][1000 genomes]
rs6434339	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6708419	0.89[CEU][hapmap]
rs6728055	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6745108	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7419276	0.85[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap]
rs7419888	0.89[CEU][hapmap];0.80[CHB][hapmap];0.95[JPT][hapmap];0.80[EUR][1000 genomes]
rs7564611	0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7576165	1.00[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7587147	0.84[EUR][1000 genomes]
rs7587956	0.84[EUR][1000 genomes]
rs7588453	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7593821	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7596592	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7607133	0.88[EUR][1000 genomes]
rs963738	1.00[CEU][hapmap];0.95[CHB][hapmap];0.87[JPT][hapmap];0.82[YRI][hapmap];0.85[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9679659	0.92[AMR][1000 genomes];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	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190193800-190202800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
2	chr2:190196400-190204600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links