Variant report

Variant	rs6429902
Chromosome Location	chr2:142275269-142275270
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:142267758..142272921-chr2:142273064..142275767,4	MCF-7	breast:
2	chr2:142225007..142227143-chr2:142273674..142276575,2	MCF-7	breast:

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10165979	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10176397	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10176693	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10187180	1.00[AMR][1000 genomes]
rs10200529	0.87[AFR][1000 genomes]
rs10200578	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10200782	1.00[AMR][1000 genomes]
rs10200845	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11887261	1.00[AMR][1000 genomes]
rs11904458	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12466189	1.00[AMR][1000 genomes]
rs12472734	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12617980	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12618575	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12691613	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12691614	1.00[AMR][1000 genomes]
rs12691615	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1483138	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1483152	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2128694	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2170667	1.00[AMR][1000 genomes]
rs2381110	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2381111	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2381112	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2381113	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs2381192	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs3935992	1.00[AMR][1000 genomes]
rs4008531	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4245859	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4264515	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4296372	1.00[AMR][1000 genomes]
rs4359580	0.89[AFR][1000 genomes]
rs4366842	1.00[AMR][1000 genomes]
rs4396652	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4439901	1.00[AMR][1000 genomes]
rs4441406	1.00[AMR][1000 genomes]
rs4476294	1.00[AMR][1000 genomes]
rs4477847	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4482418	0.87[AFR][1000 genomes]
rs4482419	0.85[AFR][1000 genomes]
rs4555282	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4954909	1.00[AMR][1000 genomes]
rs4954913	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6429896	1.00[AMR][1000 genomes]
rs6429901	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6706356	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6706377	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6707441	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6708438	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6710020	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6713043	1.00[AMR][1000 genomes]
rs6718844	1.00[AMR][1000 genomes]
rs6737585	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6749472	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7557631	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7572480	1.00[AMR][1000 genomes]
rs7582623	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7585325	1.00[AMR][1000 genomes]
rs7593866	1.00[AMR][1000 genomes]
rs7607376	1.00[AMR][1000 genomes]
rs983197	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs983198	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs983199	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs988330	0.84[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv817518	chr2:141714174-142287302	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv583203	chr2:142055133-142378975	Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv875240	chr2:142199421-142347455	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
4	nsv470491	chr2:142254119-142299923	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
5	nsv834393	chr2:142256714-142431564	Weak transcription Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	n/a
6	nsv583210	chr2:142259592-142295042	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
7	nsv459629	chr2:142263400-142295042	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
8	nsv583211	chr2:142263400-142295042	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a
9	nsv583212	chr2:142263979-142309330	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142274000-142277000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr2:142274800-142275800	Active TSS	A549	lung
3	chr2:142274800-142275800	Enhancers	HepG2	liver

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