Variant report

Variant	rs13325643
Chromosome Location	chr3:69996073-69996074
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:69739127..69742047-chr3:69995732..69997810,2	K562	blood:
2	chr3:69995790..69998749-chr3:70048599..70051495,2	K562	blood:
3	chr3:69988738..69991651-chr3:69993607..69996551,2	MCF-7	breast:
4	chr3:69739975..69740953-chr3:69996047..69996766,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000240405	Chromatin interaction

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:67)

rs_ID	r²[population]
rs12106897	1.00[EUR][1000 genomes]
rs12330475	1.00[EUR][1000 genomes]
rs12488275	1.00[EUR][1000 genomes]
rs13318952	1.00[EUR][1000 genomes]
rs13319628	1.00[EUR][1000 genomes]
rs13321870	0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs13325308	0.91[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17006426	1.00[EUR][1000 genomes]
rs28545381	1.00[EUR][1000 genomes]
rs28548134	1.00[EUR][1000 genomes]
rs28583802	1.00[EUR][1000 genomes]
rs28811715	1.00[EUR][1000 genomes]
rs55906238	1.00[EUR][1000 genomes]
rs56086555	1.00[EUR][1000 genomes]
rs57240203	1.00[EUR][1000 genomes]
rs59761935	1.00[EUR][1000 genomes]
rs60327342	1.00[EUR][1000 genomes]
rs60618858	1.00[EUR][1000 genomes]
rs61545912	1.00[EUR][1000 genomes]
rs61678936	1.00[EUR][1000 genomes]
rs6770281	1.00[EUR][1000 genomes]
rs6780009	1.00[EUR][1000 genomes]
rs73836017	1.00[EUR][1000 genomes]
rs73836019	1.00[EUR][1000 genomes]
rs73836023	1.00[EUR][1000 genomes]
rs73836026	1.00[EUR][1000 genomes]
rs73836027	1.00[EUR][1000 genomes]
rs73836029	1.00[EUR][1000 genomes]
rs73836030	1.00[EUR][1000 genomes]
rs73836031	1.00[EUR][1000 genomes]
rs73836032	1.00[EUR][1000 genomes]
rs73836034	1.00[EUR][1000 genomes]
rs73836035	1.00[EUR][1000 genomes]
rs73836037	1.00[EUR][1000 genomes]
rs73836049	1.00[EUR][1000 genomes]
rs73836053	1.00[EUR][1000 genomes]
rs73836057	1.00[EUR][1000 genomes]
rs73836091	1.00[EUR][1000 genomes]
rs73836092	1.00[EUR][1000 genomes]
rs7620183	1.00[EUR][1000 genomes]
rs7621139	1.00[EUR][1000 genomes]
rs7626775	1.00[EUR][1000 genomes]
rs7631251	1.00[EUR][1000 genomes]
rs7631348	1.00[EUR][1000 genomes]
rs7633610	1.00[EUR][1000 genomes]
rs7633732	1.00[EUR][1000 genomes]
rs9824748	1.00[EUR][1000 genomes]
rs9824825	1.00[EUR][1000 genomes]
rs9830619	1.00[EUR][1000 genomes]
rs9832459	1.00[EUR][1000 genomes]
rs9834247	1.00[EUR][1000 genomes]
rs9836115	1.00[EUR][1000 genomes]
rs9836245	1.00[EUR][1000 genomes]
rs9837652	1.00[EUR][1000 genomes]
rs9837698	1.00[EUR][1000 genomes]
rs9839441	1.00[EUR][1000 genomes]
rs9840427	1.00[EUR][1000 genomes]
rs9843425	1.00[EUR][1000 genomes]
rs9846982	1.00[EUR][1000 genomes]
rs9854199	1.00[EUR][1000 genomes]
rs9869929	1.00[EUR][1000 genomes]
rs9874322	1.00[EUR][1000 genomes]
rs9874957	1.00[EUR][1000 genomes]
rs9877286	1.00[EUR][1000 genomes]
rs9879292	1.00[EUR][1000 genomes]
rs9879921	1.00[EUR][1000 genomes]
rs9880541	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533396	chr3:69964029-70538306	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:69964400-70008400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr3:69975200-69997000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
3	chr3:69975200-70008400	Weak transcription	Rectal Smooth Muscle	rectum
4	chr3:69975800-70008400	Weak transcription	Aorta	Aorta
5	chr3:69975800-70013800	Weak transcription	Psoas Muscle	Psoas
6	chr3:69978600-70014000	Weak transcription	Esophagus	oesophagus
7	chr3:69979800-70008400	Weak transcription	Right Ventricle	heart
8	chr3:69981800-70008200	Weak transcription	Stomach Mucosa	stomach
9	chr3:69981800-70016800	Weak transcription	K562	blood
10	chr3:69983400-70008400	Weak transcription	Fetal Muscle Leg	muscle
11	chr3:69984000-70008600	Weak transcription	Fetal Kidney	kidney
12	chr3:69985400-70007000	Weak transcription	Fetal Stomach	stomach
13	chr3:69985600-70008400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr3:69985800-69998200	Weak transcription	Duodenum Smooth Muscle	Duodenum
15	chr3:69987200-70008400	Weak transcription	Lung	lung
16	chr3:69987600-70008400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr3:69987800-70008400	Weak transcription	Gastric	stomach
18	chr3:69987800-70008400	Weak transcription	Pancreas	Pancrea
19	chr3:69988400-70008800	Weak transcription	Fetal Lung	lung
20	chr3:69990800-70015600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
21	chr3:69991200-70008600	Weak transcription	NHLF	lung
22	chr3:69991400-69998200	Weak transcription	Primary monocytes fromperipheralblood	blood
23	chr3:69992000-69997000	Weak transcription	Colon Smooth Muscle	Colon
24	chr3:69992000-69997000	Weak transcription	A549	lung
25	chr3:69992200-69997000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr3:69992200-69998200	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr3:69992200-69998400	Weak transcription	Adipose Nuclei	Adipose
28	chr3:69992400-69998400	Enhancers	Brain Hippocampus Middle	brain
29	chr3:69992600-69998200	Weak transcription	Stomach Smooth Muscle	stomach
30	chr3:69993000-69998000	Enhancers	Brain Angular Gyrus	brain
31	chr3:69993000-69998000	Enhancers	Brain Cingulate Gyrus	brain
32	chr3:69993000-69998000	Enhancers	Brain Substantia Nigra	brain
33	chr3:69993200-69996200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
34	chr3:69993600-70015600	Weak transcription	Colonic Mucosa	Colon
35	chr3:69993800-69998200	Weak transcription	Ovary	ovary
36	chr3:69994400-69997200	Transcr. at gene 5' and 3'	Foreskin Melanocyte Primary Cells skin03	Skin
37	chr3:69994400-70016200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
38	chr3:69994600-69996200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
39	chr3:69994600-69997800	Weak transcription	Cortex derived primary cultured neurospheres	brain
40	chr3:69994600-69998000	Enhancers	Brain Inferior Temporal Lobe	brain
41	chr3:69994800-69997400	Transcr. at gene 5' and 3'	Foreskin Melanocyte Primary Cells skin01	Skin
42	chr3:69994800-69998000	Enhancers	Fetal Heart	heart
43	chr3:69995000-69996800	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:69995000-69997400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr3:69995200-69998600	Weak transcription	HUES48 Cell Line	embryonic stem cell
46	chr3:69995400-69996200	Enhancers	iPS-20b Cell Line	embryonic stem cell
47	chr3:69996000-69996400	Weak transcription	Brain Anterior Caudate	brain
48	chr3:69996000-69998200	Weak transcription	Left Ventricle	heart
49	chr3:69996000-69999000	Strong transcription	Skeletal Muscle Female	skeletal muscle

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