Variant report

Variant	rs1447624
Chromosome Location	chr3:160621070-160621071
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	chr3:160620374..160622809-chr3:160634406..160636878,2	MCF-7	breast:

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10513558	0.93[JPT][hapmap]
rs11709802	0.86[JPT][hapmap]
rs12485723	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12494673	0.93[JPT][hapmap]
rs12498008	0.80[JPT][hapmap]
rs12696110	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1348977	0.86[JPT][hapmap];0.87[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs1374795	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs1447608	0.80[JPT][hapmap]
rs1447616	0.89[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1447617	0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs1599382	0.80[JPT][hapmap]
rs16831758	0.80[JPT][hapmap]
rs1839014	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1868104	0.86[JPT][hapmap]
rs1868106	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1971240	0.80[JPT][hapmap]
rs2028988	0.86[JPT][hapmap]
rs4679667	0.93[JPT][hapmap]
rs6441333	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6441334	0.87[JPT][hapmap];0.93[YRI][hapmap];0.91[AFR][1000 genomes];0.88[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs6441335	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6441336	0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs6770488	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes]
rs6776120	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6785844	0.85[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6789195	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs6796612	0.89[EUR][1000 genomes]
rs6797498	0.87[JPT][hapmap]
rs6799391	0.87[JPT][hapmap];0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs6800092	0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6808386	0.87[JPT][hapmap]
rs7610732	0.87[JPT][hapmap]
rs7613316	0.87[JPT][hapmap]
rs7616249	0.87[JPT][hapmap]
rs7629374	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7635796	0.87[JPT][hapmap]
rs7636886	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs7640874	0.87[JPT][hapmap]
rs7644586	0.87[JPT][hapmap]
rs778647	0.80[JPT][hapmap]
rs778651	0.87[JPT][hapmap]
rs778652	0.80[JPT][hapmap]
rs898676	0.80[JPT][hapmap]
rs9814174	0.83[ASN][1000 genomes]
rs9857743	0.87[JPT][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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases
2	nsv1009249	chr3:160496237-160627378	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv536780	chr3:160496237-160627378	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv519474	chr3:160620205-160630267	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160616600-160627600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr3:160620800-160621200	Enhancers	Psoas Muscle	Psoas
3	chr3:160620800-160621400	Enhancers	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links