Variant report

Variant	rs9843611
Chromosome Location	chr3:69990901-69990902
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr17:56735471..56737041-chr3:69989241..69991305,2	MCF-7	breast:
2	chr3:69988738..69991651-chr3:69993607..69996551,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000202077	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:61)

rs_ID	r²[population]
rs11128144	0.87[EUR][1000 genomes]
rs11128145	0.87[EUR][1000 genomes]
rs11128146	0.87[EUR][1000 genomes]
rs11128147	0.87[EUR][1000 genomes]
rs11128148	1.00[JPT][hapmap];0.87[EUR][1000 genomes]
rs11128149	0.87[EUR][1000 genomes]
rs11128150	0.87[EUR][1000 genomes]
rs11128151	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs11128154	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12106831	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12106842	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12106907	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12106913	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12106915	0.87[EUR][1000 genomes]
rs12107208	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12107258	0.87[EUR][1000 genomes]
rs12107267	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12107268	0.87[EUR][1000 genomes]
rs12107403	0.87[EUR][1000 genomes]
rs12107405	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12107409	0.87[EUR][1000 genomes]
rs12107473	0.87[EUR][1000 genomes]
rs12107744	1.00[CHB][hapmap]
rs12108172	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs12108174	0.87[EUR][1000 genomes]
rs1316735	1.00[TSI][hapmap]
rs1430600	0.87[EUR][1000 genomes]
rs1532199	1.00[CHB][hapmap]
rs17006441	1.00[CHB][hapmap]
rs17006565	1.00[CHB][hapmap];0.89[EUR][1000 genomes]
rs17006574	0.89[EUR][1000 genomes]
rs17006578	1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[TSI][hapmap];0.89[EUR][1000 genomes]
rs17006580	0.87[EUR][1000 genomes]
rs17006582	0.87[EUR][1000 genomes]
rs17006587	0.87[EUR][1000 genomes]
rs17006593	0.87[EUR][1000 genomes]
rs17006595	0.87[EUR][1000 genomes]
rs17006597	0.87[EUR][1000 genomes]
rs17006601	0.87[EUR][1000 genomes]
rs17006609	0.87[EUR][1000 genomes]
rs17006615	1.00[MEX][hapmap]
rs28480308	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6549252	1.00[CHB][hapmap]
rs724794	0.81[ASW][hapmap];1.00[CHB][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.81[YRI][hapmap]
rs9310177	1.00[CHB][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9820221	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9827888	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9836115	1.00[MEX][hapmap]
rs9837137	0.89[EUR][1000 genomes]
rs9840417	1.00[CHB][hapmap];0.81[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.89[EUR][1000 genomes]
rs9843596	1.00[CHB][hapmap];1.00[EUR][1000 genomes]
rs9847658	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9866423	1.00[CHB][hapmap];0.81[YRI][hapmap]
rs9882545	1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs9882576	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9917631	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9917633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.82[AFR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9917634	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9917686	1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs9917798	0.87[EUR][1000 genomes]
rs9941978	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:41 , 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	chr3:69986600-69993000	Weak transcription	Fetal Heart	heart
16	chr3:69987200-69993400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr3:69987200-70008400	Weak transcription	Lung	lung
18	chr3:69987400-69993000	Weak transcription	Brain Cingulate Gyrus	brain
19	chr3:69987600-70008400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
20	chr3:69987800-70008400	Weak transcription	Gastric	stomach
21	chr3:69987800-70008400	Weak transcription	Pancreas	Pancrea
22	chr3:69988200-69992800	Weak transcription	Brain Anterior Caudate	brain
23	chr3:69988400-69993000	Weak transcription	Brain Angular Gyrus	brain
24	chr3:69988400-70008800	Weak transcription	Fetal Lung	lung
25	chr3:69988800-69992000	Strong transcription	Colon Smooth Muscle	Colon
26	chr3:69989200-69993800	Strong transcription	Ovary	ovary
27	chr3:69989400-69992600	Strong transcription	Left Ventricle	heart
28	chr3:69989600-69992200	Strong transcription	Adipose Nuclei	Adipose
29	chr3:69989600-69993000	Strong transcription	Skeletal Muscle Female	skeletal muscle
30	chr3:69990000-69992400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr3:69990400-69991000	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr3:69990600-69991200	Enhancers	Brain Hippocampus Middle	brain
33	chr3:69990600-69991400	Strong transcription	Primary monocytes fromperipheralblood	blood
34	chr3:69990600-69991800	Weak transcription	Stomach Smooth Muscle	stomach
35	chr3:69990600-69992000	Genic enhancers	A549	lung
36	chr3:69990800-69991000	Genic enhancers	NHLF	lung
37	chr3:69990800-69991200	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr3:69990800-69991200	Enhancers	Brain Substantia Nigra	brain
39	chr3:69990800-69992200	Strong transcription	Monocytes-CD14+_RO01746	blood
40	chr3:69990800-69994000	Transcr. at gene 5' and 3'	Foreskin Melanocyte Primary Cells skin03	Skin
41	chr3:69990800-70015600	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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