Variant report

Variant	rs159624
Chromosome Location	chr5:59171345-59171346
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:59169313..59171602-chr5:59172482..59174031,2	MCF-7	breast:

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs1003218	0.86[CHB][hapmap];0.82[JPT][hapmap];0.90[ASN][1000 genomes]
rs1003219	0.84[CHB][hapmap];0.82[JPT][hapmap];0.86[ASN][1000 genomes]
rs10042020	0.84[CHB][hapmap];0.82[JPT][hapmap];0.91[ASN][1000 genomes]
rs10066777	0.88[ASN][1000 genomes]
rs10514880	0.82[JPT][hapmap];0.85[ASN][1000 genomes]
rs13186506	0.84[CHB][hapmap];0.82[JPT][hapmap]
rs1369286	0.91[ASN][1000 genomes]
rs154144	0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs159608	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs159610	0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs159622	1.00[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs159626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16890200	0.86[CHB][hapmap];0.83[ASN][1000 genomes]
rs16890226	0.86[CHB][hapmap]
rs16890228	0.84[CHB][hapmap]
rs16890269	0.92[CHB][hapmap];0.82[JPT][hapmap];0.91[ASN][1000 genomes]
rs16890276	0.84[CHB][hapmap];0.82[JPT][hapmap];0.91[ASN][1000 genomes]
rs16890316	0.86[CHB][hapmap];0.82[JPT][hapmap];0.91[ASN][1000 genomes]
rs173945	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs181924	0.81[CHB][hapmap];0.82[JPT][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs256348	0.86[CEU][hapmap];0.92[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs256350	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs256353	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6859121	0.84[CHB][hapmap];0.82[JPT][hapmap];0.88[ASN][1000 genomes]
rs6868846	0.92[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs6889984	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]

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	nsv1018015	chr5:58889470-59532667	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
2	nsv537766	chr5:58889470-59532667	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv534614	chr5:58962510-59388525	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
4	nsv968095	chr5:59170889-59174053	Enhancers Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:59160800-59189000	Weak transcription	Aorta	Aorta
2	chr5:59164800-59172000	Enhancers	HSMM	muscle
3	chr5:59167000-59172400	Enhancers	Hela-S3	cervix

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links