Variant report

Variant	rs653825
Chromosome Location	chr6:33672059-33672060
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:33395175..33398193-chr6:33670762..33673349,3	MCF-7	breast:
2	chr6:33670443..33672859-chr6:33684999..33687830,2	K562	blood:
3	chr6:33357291..33360249-chr6:33670006..33672826,2	MCF-7	breast:
4	chr6:33555432..33562879-chr6:33670455..33680174,12	K562	blood:
5	chr6:33667395..33669385-chr6:33670170..33673083,3	MCF-7	breast:
6	chr6:33664567..33666860-chr6:33668703..33672703,6	MCF-7	breast:

Variant related genes	Relation type
ENSG00000137288	Chromatin interaction
ENSG00000197251	Chromatin interaction
ENSG00000266509	Chromatin interaction
ENSG00000237649	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs523076	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs559290	0.85[YRI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62398913	0.91[EUR][1000 genomes]
rs637135	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs649775	0.93[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs653536	0.93[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72880503	0.83[EUR][1000 genomes]
rs942637	0.93[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830638	chr6:33551202-33711346	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	46 gene(s)	inside rSNPs	diseases
2	nsv830639	chr6:33592022-33711346	Strong transcription Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	30 gene(s)	inside rSNPs	diseases
3	nsv885772	chr6:33638180-33767727	Bivalent Enhancer Genic enhancers Strong transcription Enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	28 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:33621400-33672600	Strong transcription	Dnd41	blood
2	chr6:33661800-33675800	Weak transcription	Ovary	ovary
3	chr6:33663000-33678200	Weak transcription	Fetal Kidney	kidney
4	chr6:33663800-33678600	Weak transcription	Small Intestine	intestine
5	chr6:33664600-33678000	Weak transcription	Rectal Smooth Muscle	rectum
6	chr6:33664800-33676200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr6:33665200-33678000	Weak transcription	Colon Smooth Muscle	Colon
8	chr6:33665200-33678200	Weak transcription	Brain Substantia Nigra	brain
9	chr6:33665200-33678600	Weak transcription	Aorta	Aorta
10	chr6:33665400-33672200	Weak transcription	Primary neutrophils fromperipheralblood	blood
11	chr6:33665400-33677800	Weak transcription	Stomach Mucosa	stomach
12	chr6:33665600-33678200	Weak transcription	NH-A	brain
13	chr6:33665600-33678400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr6:33665800-33676600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr6:33666000-33676200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
16	chr6:33666000-33676600	Weak transcription	Brain Angular Gyrus	brain
17	chr6:33666000-33677800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr6:33666000-33678200	Weak transcription	Duodenum Smooth Muscle	Duodenum
19	chr6:33666200-33677600	Weak transcription	Psoas Muscle	Psoas
20	chr6:33666400-33677800	Weak transcription	Brain Anterior Caudate	brain
21	chr6:33666600-33675800	Weak transcription	Adipose Nuclei	Adipose
22	chr6:33666600-33677800	Weak transcription	Right Atrium	heart
23	chr6:33666600-33678200	Weak transcription	Placenta Amnion	Placenta Amnion
24	chr6:33666600-33678400	Weak transcription	Colonic Mucosa	Colon
25	chr6:33666600-33678400	Weak transcription	Rectal Mucosa Donor 31	rectum
26	chr6:33667000-33678400	Weak transcription	Primary monocytes fromperipheralblood	blood
27	chr6:33667200-33672600	Weak transcription	Lung	lung
28	chr6:33667200-33675200	Weak transcription	Duodenum Mucosa	Duodenum
29	chr6:33667200-33675400	Weak transcription	Muscle Satellite Cultured Cells	--
30	chr6:33667200-33675800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
31	chr6:33667200-33675800	Weak transcription	Brain Hippocampus Middle	brain
32	chr6:33667200-33676000	Weak transcription	Brain Germinal Matrix	brain
33	chr6:33667200-33676800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr6:33667800-33672400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
35	chr6:33668200-33674800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
36	chr6:33668400-33672200	Weak transcription	Thymus	Thymus
37	chr6:33668400-33675000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
38	chr6:33668400-33675000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr6:33668400-33675000	Weak transcription	Primary hematopoietic stem cells	blood
40	chr6:33668400-33675200	Weak transcription	Liver	Liver
41	chr6:33668400-33677800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
42	chr6:33668600-33672600	Weak transcription	Primary T cells fromperipheralblood	blood
43	chr6:33668600-33674200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr6:33668600-33674400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
45	chr6:33668600-33675400	Weak transcription	Monocytes-CD14+_RO01746	blood
46	chr6:33668600-33675800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
47	chr6:33668600-33675800	Weak transcription	HUVEC	blood vessel
48	chr6:33668600-33676000	Weak transcription	Pancreas	Pancrea
49	chr6:33668600-33676000	Weak transcription	Right Ventricle	heart
50	chr6:33668600-33676200	Weak transcription	Primary B cells from cord blood	blood

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