Variant report

Variant	rs3798343
Chromosome Location	chr6:35357693-35357694
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:35355898..35357856-chr6:35435877..35438604,2	MCF-7	breast:
2	chr6:35357119..35359280-chr6:35381756..35383497,2	MCF-7	breast:
3	chr6:35348461..35351306-chr6:35356739..35359433,2	MCF-7	breast:
4	chr6:35327015..35329027-chr6:35357004..35359462,2	K562	blood:
5	chr6:35352372..35354969-chr6:35356317..35359445,3	K562	blood:

Variant related genes	Relation type
ENSG00000198755	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10080361	0.90[JPT][hapmap]
rs10080411	0.81[ASN][1000 genomes]
rs10755687	0.80[CHD][hapmap]
rs10807150	0.87[CHD][hapmap]
rs10947540	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs1194	0.94[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs12173347	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12173582	0.94[CHB][hapmap];0.94[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.82[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12211765	0.92[ASN][1000 genomes]
rs13214290	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs1557567	0.86[CHD][hapmap]
rs1557568	0.87[CHD][hapmap]
rs1888822	0.85[JPT][hapmap]
rs1888823	0.94[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1888824	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs1888825	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs1894650	0.95[JPT][hapmap]
rs1894651	0.95[JPT][hapmap]
rs1894652	0.83[ASN][1000 genomes]
rs1894653	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1929847	0.94[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs1929849	0.94[CHD][hapmap];0.95[JPT][hapmap]
rs1987673	0.87[CHD][hapmap]
rs2032538	0.95[JPT][hapmap]
rs2071920	0.87[CHD][hapmap]
rs2183834	0.84[ASN][1000 genomes]
rs2267657	0.87[CHD][hapmap]
rs2267660	0.91[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.84[ASN][1000 genomes]
rs2267661	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs2267662	0.94[CHD][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs2267663	0.95[JPT][hapmap]
rs2267664	1.00[CHB][hapmap];0.95[JPT][hapmap];0.93[ASN][1000 genomes]
rs2284196	0.81[ASN][1000 genomes]
rs2395621	0.80[ASN][1000 genomes]
rs3777744	0.89[CHD][hapmap];0.81[ASN][1000 genomes]
rs3798342	0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3800382	0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs3800383	0.91[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.83[ASN][1000 genomes]
rs3800385	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs3800386	0.91[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.81[ASN][1000 genomes]
rs3800387	0.91[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.81[ASN][1000 genomes]
rs3800388	0.91[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.81[ASN][1000 genomes]
rs3800392	0.95[JPT][hapmap]
rs4583983	0.91[ASN][1000 genomes]
rs4711411	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs4711413	0.94[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.84[ASN][1000 genomes]
rs4711414	0.80[ASN][1000 genomes]
rs4713845	0.95[JPT][hapmap]
rs4713848	0.91[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.82[ASN][1000 genomes]
rs58925593	0.84[ASN][1000 genomes]
rs62403575	0.80[ASN][1000 genomes]
rs6902523	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs6907324	0.80[ASN][1000 genomes]
rs6907573	0.84[ASN][1000 genomes]
rs6913037	0.95[JPT][hapmap]
rs6920747	0.80[ASN][1000 genomes]
rs6938946	0.89[CHD][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs7772212	0.80[ASN][1000 genomes]
rs914547	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs9296144	0.90[JPT][hapmap]
rs9296150	0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9348974	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9366883	0.95[JPT][hapmap]
rs9366885	0.92[ASN][1000 genomes]
rs9368854	0.91[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];1.00[TSI][hapmap];0.81[ASN][1000 genomes]
rs9368857	0.95[JPT][hapmap];0.84[ASN][1000 genomes]
rs9368859	0.90[ASN][1000 genomes]
rs9368860	0.90[ASN][1000 genomes]
rs9368865	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9380500	0.95[JPT][hapmap]
rs9380501	0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs9380502	0.90[ASN][1000 genomes]
rs9380505	0.82[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9380507	0.82[EUR][1000 genomes]
rs9394288	0.95[JPT][hapmap]
rs9462072	0.89[ASN][1000 genomes]
rs9469964	0.92[CHD][hapmap];0.95[JPT][hapmap]
rs9469972	0.87[CHD][hapmap]
rs975496	0.95[JPT][hapmap];0.80[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830641	chr6:35282534-35440603	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	57 gene(s)	inside rSNPs	diseases
2	nsv462907	chr6:35333799-35408959	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv602908	chr6:35333799-35408959	Weak transcription Strong transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv602909	chr6:35356640-35423489	Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS 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	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:35338400-35378400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr6:35338600-35359400	Weak transcription	Placenta Amnion	Placenta Amnion
3	chr6:35339600-35357800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr6:35340600-35359400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
5	chr6:35344400-35358000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
6	chr6:35345600-35378400	Weak transcription	Aorta	Aorta
7	chr6:35346200-35359200	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr6:35346200-35359800	Weak transcription	Stomach Smooth Muscle	stomach
9	chr6:35347600-35359200	Weak transcription	Brain Angular Gyrus	brain
10	chr6:35347600-35359200	Weak transcription	Brain Substantia Nigra	brain
11	chr6:35349600-35359200	Weak transcription	Gastric	stomach
12	chr6:35350200-35358000	Weak transcription	Adipose Nuclei	Adipose
13	chr6:35350200-35359400	Weak transcription	Liver	Liver
14	chr6:35350400-35358400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
15	chr6:35351000-35357800	Weak transcription	Right Atrium	heart
16	chr6:35351000-35359000	Weak transcription	Primary T cells from cord blood	blood
17	chr6:35351000-35359200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:35351000-35359400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr6:35351000-35360200	Weak transcription	Primary B cells from peripheral blood	blood
20	chr6:35351000-35360800	Weak transcription	Primary B cells from cord blood	blood
21	chr6:35351000-35363400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
22	chr6:35351200-35357800	Weak transcription	Dnd41	blood
23	chr6:35351200-35359200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
24	chr6:35351200-35359400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr6:35351200-35359600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr6:35353600-35358000	Enhancers	Placenta	Placenta
27	chr6:35353800-35359000	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr6:35354000-35357800	Weak transcription	Skeletal Muscle Female	skeletal muscle
29	chr6:35354000-35358400	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr6:35354000-35358400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
31	chr6:35354000-35358600	Weak transcription	NHLF	lung
32	chr6:35354000-35359000	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr6:35354000-35359200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr6:35354000-35359200	Weak transcription	Brain Cingulate Gyrus	brain
35	chr6:35354000-35359200	Weak transcription	Fetal Lung	lung
36	chr6:35354000-35359200	Weak transcription	HSMMtube	muscle
37	chr6:35354000-35359400	Weak transcription	Left Ventricle	heart
38	chr6:35354000-35359600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr6:35354000-35359600	Weak transcription	Fetal Heart	heart
40	chr6:35354000-35359600	Weak transcription	Psoas Muscle	Psoas
41	chr6:35354000-35359800	Weak transcription	Fetal Stomach	stomach
42	chr6:35354000-35360800	Weak transcription	Fetal Thymus	thymus
43	chr6:35354000-35372400	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr6:35354200-35359200	Weak transcription	NHDF-Ad	bronchial
45	chr6:35354400-35359800	Weak transcription	Rectal Smooth Muscle	rectum
46	chr6:35354600-35358600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
47	chr6:35354600-35359200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr6:35354600-35359200	Weak transcription	Colon Smooth Muscle	Colon
49	chr6:35354800-35357800	Weak transcription	HSMM	muscle
50	chr6:35354800-35359200	Weak transcription	Brain Anterior Caudate	brain

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