Variant report

Variant	rs12205372
Chromosome Location	chr6:54694536-54694537
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:54692258..54695985-chr6:54709264..54713250,6	MCF-7	breast:
2	chr6:54688351..54691007-chr6:54693141..54697889,4	MCF-7	breast:
3	chr6:54692819..54694720-chr6:54713504..54715357,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168143	Chromatin interaction

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10223546	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10223849	0.92[AFR][1000 genomes];0.95[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10440848	0.84[CHB][hapmap]
rs10456688	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10807484	0.86[ASN][1000 genomes]
rs10807485	0.86[ASN][1000 genomes]
rs10948852	0.84[ASN][1000 genomes]
rs10948853	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10948860	0.84[AMR][1000 genomes]
rs10948862	0.92[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.84[ASN][1000 genomes]
rs10948864	0.85[ASN][1000 genomes]
rs12191299	0.86[ASN][1000 genomes]
rs12191386	0.83[ASW][hapmap];0.89[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs12194667	0.89[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.86[ASN][1000 genomes]
rs12195438	0.92[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap];0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12196314	0.86[CEU][hapmap];1.00[CHB][hapmap];0.85[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12199827	1.00[ASW][hapmap];0.96[CEU][hapmap];0.84[CHB][hapmap];0.82[CHD][hapmap];0.98[GIH][hapmap];1.00[LWK][hapmap];0.95[MEX][hapmap];0.98[MKK][hapmap];0.95[TSI][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs12201892	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12202062	0.86[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12203709	0.92[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12205222	0.80[ASN][1000 genomes]
rs12207559	0.92[CEU][hapmap];0.94[CHB][hapmap];0.85[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.86[MEX][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12216039	0.91[CEU][hapmap];0.94[CHB][hapmap];0.92[JPT][hapmap];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12216049	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12216186	0.84[ASN][1000 genomes]
rs13195757	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1393779	0.89[CEU][hapmap];0.84[CHB][hapmap];0.80[EUR][1000 genomes]
rs1567164	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1827513	0.81[ASN][1000 genomes]
rs1910357	0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2174145	0.96[LWK][hapmap];0.84[MKK][hapmap];0.94[YRI][hapmap]
rs2270989	0.86[ASN][1000 genomes]
rs34713378	0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4712071	0.84[ASN][1000 genomes]
rs4712075	0.92[CEU][hapmap];0.94[CHB][hapmap];0.89[CHD][hapmap];0.89[GIH][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];0.85[TSI][hapmap];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4715480	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4715481	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4715482	0.83[ASN][1000 genomes]
rs4715484	0.83[EUR][1000 genomes]
rs58988305	0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62412605	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908745	0.86[ASN][1000 genomes]
rs6908940	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6911198	0.85[CHD][hapmap]
rs6916681	0.84[YRI][hapmap]
rs6918226	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6922162	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6922543	0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6939992	0.83[ASN][1000 genomes]
rs72957572	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7452200	0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs7747352	0.85[ASN][1000 genomes]
rs7760490	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9296768	0.84[ASN][1000 genomes]
rs9296769	0.91[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap];0.84[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9464138	0.92[AFR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9464139	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9464148	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9464149	0.94[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]
rs9474997	0.80[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs9475001	0.83[CHB][hapmap]
rs9475004	0.83[CHB][hapmap];0.81[ASN][1000 genomes]
rs9475005	1.00[CEU][hapmap];0.86[CHB][hapmap];0.87[YRI][hapmap];0.85[AFR][1000 genomes];0.93[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs9475006	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9475011	0.83[ASN][1000 genomes]
rs9475013	0.82[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9475017	0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs9475021	1.00[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9475029	0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9475032	0.83[AMR][1000 genomes]
rs9475038	0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9475039	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9475040	0.86[ASN][1000 genomes]
rs9475041	0.85[ASN][1000 genomes]
rs9475045	0.80[ASN][1000 genomes]
rs9475046	0.94[CHB][hapmap];0.89[CHD][hapmap];0.86[JPT][hapmap];0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv885900	chr6:54517968-54852462	Active TSS Bivalent Enhancer Enhancers Weak transcription Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	esv2763553	chr6:54687979-54820487	Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 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
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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