Variant report

Variant	rs12328979
Chromosome Location	chr2:77721753-77721754
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	chr2:77697026..77699297-chr2:77719458..77722284,2	MCF-7	breast:

Extended variants
information (count: 38 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10185975	0.94[CHB][hapmap];0.91[JPT][hapmap];0.98[ASN][1000 genomes]
rs10192857	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];0.84[JPT][hapmap];0.91[TSI][hapmap]
rs10206763	0.81[CHB][hapmap]
rs10209947	0.88[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11126609	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.98[GIH][hapmap];0.86[JPT][hapmap];0.82[MEX][hapmap];1.00[TSI][hapmap]
rs11686224	0.88[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap]
rs11892926	0.87[ASN][1000 genomes]
rs12329320	0.84[CHB][hapmap]
rs12713916	0.81[ASN][1000 genomes]
rs13004227	0.81[CHB][hapmap]
rs13024591	0.92[ASN][1000 genomes]
rs1344255	0.84[ASW][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];0.86[TSI][hapmap];0.96[YRI][hapmap];0.89[AFR][1000 genomes];0.82[ASN][1000 genomes]
rs1344256	0.85[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap];0.87[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs1922811	0.88[CEU][hapmap];0.84[CHB][hapmap];0.84[JPT][hapmap];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1922812	0.80[CHB][hapmap]
rs1922815	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs1922817	0.88[CEU][hapmap];0.85[CHB][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes]
rs1922821	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1922823	0.96[ASN][1000 genomes]
rs1950163	0.88[CEU][hapmap];0.85[CHB][hapmap];0.84[JPT][hapmap]
rs1955403	0.97[ASN][1000 genomes]
rs2178758	0.89[AFR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2204915	0.80[CEU][hapmap];0.85[CHB][hapmap];0.82[EUR][1000 genomes]
rs5007084	1.00[CHB][hapmap];0.92[JPT][hapmap];0.97[ASN][1000 genomes]
rs6547145	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6713282	0.88[CEU][hapmap];0.85[CHB][hapmap];0.87[GIH][hapmap];0.84[JPT][hapmap];0.89[TSI][hapmap];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs67656660	0.82[EUR][1000 genomes]
rs7564840	0.87[CEU][hapmap];0.84[CHB][hapmap];0.82[EUR][1000 genomes]
rs9309517	0.88[CEU][hapmap];0.85[CHB][hapmap];0.87[GIH][hapmap];0.84[JPT][hapmap];0.89[TSI][hapmap]

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	nsv874333	chr2:77315349-77798886	Enhancers Flanking Active TSS Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv518504	chr2:77326832-78172786	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
3	nsv1004938	chr2:77347740-78186543	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv535783	chr2:77347740-78186543	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv529904	chr2:77347741-78186542	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv997329	chr2:77354560-78176285	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
7	nsv520560	chr2:77675884-77724557	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv874338	chr2:77683562-77747513	Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv874339	chr2:77683562-77872197	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
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