Variant report

Variant	rs3825849
Chromosome Location	chr15:78689669-78689670
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:78609276..78610228-chr15:78689311..78689907,2	MCF-7	breast:
2	chr15:78640272..78641260-chr15:78688964..78689871,3	MCF-7	breast:
3	chr15:78689276..78690993-chr15:78695129..78697565,2	K562	blood:
4	chr15:78681164..78684060-chr15:78688806..78691444,2	K562	blood:
5	chr15:78689388..78691661-chr15:78857643..78859305,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000169684	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs28654165	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3743086	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[YRI][hapmap]
rs61185638	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7172878	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7172999	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7177895	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7179397	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73459265	0.97[ASN][1000 genomes]
rs73459268	1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73459270	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73459290	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73461510	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73461513	1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs8035749	1.00[CHB][hapmap];0.91[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[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	nsv529491	chr15:77932659-78751516	Genic enhancers Bivalent Enhancer Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	80 gene(s)	inside rSNPs	diseases
2	nsv917303	chr15:78491050-79205255	Enhancers Genic enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	122 gene(s)	inside rSNPs	diseases
3	nsv833063	chr15:78605215-78754945	Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Enhancers Genic enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
4	nsv1052910	chr15:78608637-78707049	Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers Enhancers Flanking Bivalent TSS/Enh Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv1627	chr15:78683761-78728604	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:78667600-78704400	Weak transcription	Lung	lung
2	chr15:78687000-78689800	Enhancers	Fetal Muscle Trunk	muscle
3	chr15:78688000-78691000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
4	chr15:78688000-78691600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr15:78688000-78703800	Weak transcription	Placenta Amnion	Placenta Amnion
6	chr15:78688200-78691200	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr15:78688200-78691400	Weak transcription	H1 Cell Line	embryonic stem cell
8	chr15:78688200-78691400	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr15:78688200-78692000	Weak transcription	Fetal Muscle Leg	muscle
10	chr15:78688400-78691400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr15:78688400-78691400	Weak transcription	HUES48 Cell Line	embryonic stem cell
12	chr15:78688400-78691400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr15:78688600-78691600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr15:78688800-78689800	Enhancers	Duodenum Mucosa	Duodenum
15	chr15:78688800-78690000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr15:78688800-78690000	Enhancers	Esophagus	oesophagus
17	chr15:78688800-78690200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr15:78688800-78690200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
19	chr15:78688800-78690200	Enhancers	NHDF-Ad	bronchial
20	chr15:78688800-78690400	Enhancers	Rectal Mucosa Donor 31	rectum
21	chr15:78688800-78692400	Enhancers	Placenta	Placenta
22	chr15:78689000-78689800	Enhancers	Stomach Mucosa	stomach
23	chr15:78689000-78690200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr15:78689000-78690400	Enhancers	Liver	Liver
25	chr15:78689000-78690800	Weak transcription	Spleen	Spleen
26	chr15:78689000-78692200	Enhancers	Adipose Nuclei	Adipose
27	chr15:78689200-78689800	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr15:78689200-78689800	Bivalent Enhancer	Osteobl	bone
29	chr15:78689200-78690000	Enhancers	Fetal Lung	lung
30	chr15:78689200-78690600	Enhancers	Stomach Smooth Muscle	stomach
31	chr15:78689200-78690800	Enhancers	Colon Smooth Muscle	Colon
32	chr15:78689200-78692200	Enhancers	Fetal Stomach	stomach
33	chr15:78689400-78689800	Enhancers	Breast Myoepithelial Primary Cells	Breast
34	chr15:78689400-78689800	Enhancers	Brain Angular Gyrus	brain
35	chr15:78689600-78689800	Bivalent Enhancer	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
36	chr15:78689600-78689800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr15:78689600-78689800	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr15:78689600-78690000	Enhancers	Colonic Mucosa	Colon
39	chr15:78689600-78690000	Enhancers	Pancreas	Pancrea
40	chr15:78689600-78692000	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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