Variant report

Variant	rs16846133
Chromosome Location	chr2:212289728-212289729
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	chr2:212288710..212290756-chr2:212380740..212383126,2	MCF-7	breast:
2	chr2:212286106..212287792-chr2:212289650..212291629,2	MCF-7	breast:

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10932374	1.00[MEX][hapmap]
rs11900036	0.82[CHB][hapmap];0.83[EUR][1000 genomes]
rs16825005	0.80[CHB][hapmap];0.87[CHD][hapmap];0.82[JPT][hapmap]
rs16825008	0.82[CHD][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap]
rs16846013	0.93[MEX][hapmap]
rs16846100	0.90[CHB][hapmap];0.87[CHD][hapmap];0.85[GIH][hapmap];0.82[JPT][hapmap];0.93[MEX][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs16846127	0.87[CEU][hapmap];0.95[CHB][hapmap];0.92[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs16846128	0.92[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16846136	1.00[CHB][hapmap];0.95[CHD][hapmap];0.80[GIH][hapmap];0.95[JPT][hapmap];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs16846140	1.00[CHB][hapmap];0.95[CHD][hapmap];0.84[GIH][hapmap];0.95[JPT][hapmap];0.84[MEX][hapmap];0.84[TSI][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1836716	0.93[ASN][1000 genomes]
rs1836717	1.00[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs1836718	0.92[CEU][hapmap];0.82[CHB][hapmap];0.85[EUR][1000 genomes]
rs2033647	0.95[CHB][hapmap];0.87[CHD][hapmap];0.84[GIH][hapmap];0.87[JPT][hapmap];0.86[MEX][hapmap];0.87[ASN][1000 genomes]
rs2289086	0.89[GIH][hapmap]
rs3791691	1.00[MEX][hapmap]
rs3791696	0.93[MEX][hapmap]
rs3791702	1.00[CHB][hapmap];0.95[JPT][hapmap];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3791703	0.81[EUR][1000 genomes]
rs3791704	0.89[CHB][hapmap];0.94[JPT][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3791705	0.83[EUR][1000 genomes]
rs3791706	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3791707	0.83[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3791708	0.87[CEU][hapmap];0.95[CHB][hapmap];0.95[CHD][hapmap];0.89[GIH][hapmap];0.91[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3791709	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.87[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs3791710	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs4673613	0.87[MEX][hapmap]
rs4673616	0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs4673617	0.81[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs55901919	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs59043430	0.86[EUR][1000 genomes]
rs62178762	0.87[ASN][1000 genomes]
rs6435622	1.00[CHB][hapmap];0.92[CHD][hapmap];0.95[JPT][hapmap];0.91[ASN][1000 genomes]
rs73985439	0.82[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7591494	1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv834523	chr2:212163236-212331393	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv584314	chr2:212238982-212292521	Weak transcription Flanking Active TSS Enhancers Active TSS Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases
3	nsv1000722	chr2:212272622-212465143	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	nsv875777	chr2:212274937-212295875	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv818108	chr2:212289728-212292699	Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:212279400-212294600	Weak transcription	Fetal Heart	heart
2	chr2:212281600-212301200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr2:212287000-212295400	Weak transcription	HUVEC	blood vessel
4	chr2:212288200-212292800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
5	chr2:212288200-212302400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links