Variant report

Variant	rs6581346
Chromosome Location	chr12:40189614-40189615
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	chr12:40154707..40156485-chr12:40189200..40190990,2	MCF-7	breast:

Extended variants
information (count: 71 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10444571	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10444572	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10747879	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10784058	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4238074	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4238075	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4238077	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4238078	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4267135	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4268570	0.95[EUR][1000 genomes]
rs4321021	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs4322462	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4334097	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4334098	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4334099	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4374002	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4391873	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4397917	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4426190	0.89[EUR][1000 genomes]
rs4427625	1.00[EUR][1000 genomes]
rs4435073	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4441086	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4447240	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4450227	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4511345	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4529945	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4533100	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4544077	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4576894	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4583047	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4611277	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4639999	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4767953	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4768173	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4768175	1.00[ASN][1000 genomes]
rs4768176	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs4768178	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4768180	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4768181	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4768182	1.00[EUR][1000 genomes]
rs56122050	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581321	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581325	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581326	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581336	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581337	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6581338	1.00[EUR][1000 genomes]
rs7133037	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7135021	1.00[ASN][1000 genomes]
rs7135047	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7297063	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7299595	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7300946	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7302571	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7303581	1.00[AFR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7310917	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7956254	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7961216	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7967287	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs7967347	1.00[ASN][1000 genomes]
rs7969296	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7973782	0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7975209	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9645805	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037457	chr12:39898349-40245401	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv541480	chr12:39898349-40245401	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1053603	chr12:40082673-40197609	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv427907	chr12:40122713-40199621	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv428280	chr12:40122713-40199621	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS	Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv1052012	chr12:40180398-40237782	Enhancers Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv1040628	chr12:40180398-40244001	Strong transcription Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40158200-40199000	Weak transcription	Left Ventricle	heart
2	chr12:40161600-40198800	Weak transcription	Cortex derived primary cultured neurospheres	brain
3	chr12:40188800-40193400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr12:40189200-40189800	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr12:40189600-40190000	Weak transcription	Colon Smooth Muscle	Colon

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