Variant report

Variant	rs6825065
Chromosome Location	chr4:3317242-3317243
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:3312095..3315185-chr4:3316131..3319628,4	MCF-7	breast:
2	chr4:3316773..3319078-chr4:3532523..3535417,2	K562	blood:
3	chr4:3316605..3318231-chr4:3318399..3321148,2	K562	blood:

Variant related genes	Relation type
ENSG00000163956	Chromatin interaction
ENSG00000248840	Chromatin interaction
ENSG00000159788	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1119290	1.00[AMR][1000 genomes]
rs1119291	1.00[AMR][1000 genomes]
rs16844191	0.81[YRI][hapmap];0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs16844226	1.00[AMR][1000 genomes]
rs6832960	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6847711	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7676111	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7690736	1.00[AMR][1000 genomes]
rs7692870	1.00[AMR][1000 genomes]
rs878002	1.00[AMR][1000 genomes]
rs878003	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3418626	chr4:2741174-3461492	Genic enhancers Weak transcription Active TSS Strong transcription Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
2	esv3397632	chr4:2741239-3460583	Enhancers Flanking Active TSS Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	63 gene(s)	inside rSNPs	diseases
3	nsv998290	chr4:3176454-3355758	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent/Poised TSS Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	nsv878455	chr4:3215835-3344891	Strong transcription Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv878456	chr4:3215835-3467519	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
6	nsv428106	chr4:3226182-3752322	Enhancers ZNF genes & repeats Weak transcription Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
7	nsv878461	chr4:3270488-3339038	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
8	nsv593440	chr4:3283422-3339038	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv461165	chr4:3283422-3342137	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
10	nsv593441	chr4:3283422-3342137	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
11	nsv966506	chr4:3308550-3320391	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
12	nsv878462	chr4:3311548-3505448	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3296600-3318600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr4:3299600-3318600	Weak transcription	Aorta	Aorta
3	chr4:3301200-3350000	Weak transcription	H9 Cell Line	embryonic stem cell
4	chr4:3304800-3318600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr4:3306600-3320600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr4:3307000-3320600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr4:3307200-3318000	Weak transcription	Liver	Liver
8	chr4:3307200-3327000	Weak transcription	Fetal Kidney	kidney
9	chr4:3307400-3325600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr4:3307400-3326800	Weak transcription	A549	lung
11	chr4:3307600-3322200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr4:3307600-3323000	Weak transcription	NH-A	brain
13	chr4:3307600-3323600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr4:3307800-3319000	Weak transcription	Colon Smooth Muscle	Colon
15	chr4:3308000-3318200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr4:3308000-3318600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr4:3308000-3319800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr4:3308000-3322800	Weak transcription	NHDF-Ad	bronchial
19	chr4:3308000-3323600	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr4:3308000-3323800	Weak transcription	Osteobl	bone
21	chr4:3308000-3326000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
22	chr4:3308000-3327000	Weak transcription	Sigmoid Colon	Sigmoid Colon
23	chr4:3308200-3318400	Weak transcription	HUES6 Cell Line	embryonic stem cell
24	chr4:3308200-3318400	Weak transcription	Duodenum Smooth Muscle	Duodenum
25	chr4:3308200-3318600	Weak transcription	NHLF	lung
26	chr4:3308200-3319800	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr4:3308200-3320400	Weak transcription	Fetal Heart	heart
28	chr4:3308200-3323200	Weak transcription	Primary T helper cells fromperipheralblood	blood
29	chr4:3308400-3317800	Weak transcription	HSMM	muscle
30	chr4:3308400-3318200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
31	chr4:3308400-3318200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
32	chr4:3308400-3320200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr4:3308400-3321400	Weak transcription	Stomach Mucosa	stomach
34	chr4:3308600-3317400	Weak transcription	Pancreas	Pancrea
35	chr4:3308600-3317800	Weak transcription	Adipose Nuclei	Adipose
36	chr4:3308600-3317800	Weak transcription	Left Ventricle	heart
37	chr4:3308600-3318000	Weak transcription	HSMMtube	muscle
38	chr4:3308600-3318200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
39	chr4:3308600-3319000	Weak transcription	Brain Inferior Temporal Lobe	brain
40	chr4:3308600-3319400	Weak transcription	Monocytes-CD14+_RO01746	blood
41	chr4:3308600-3322600	Weak transcription	Brain Substantia Nigra	brain
42	chr4:3308600-3323000	Weak transcription	Brain Angular Gyrus	brain
43	chr4:3309000-3318000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
44	chr4:3309000-3322000	Weak transcription	Right Atrium	heart
45	chr4:3309000-3327200	Weak transcription	Primary hematopoietic stem cells	blood
46	chr4:3309600-3319000	Weak transcription	Brain Hippocampus Middle	brain
47	chr4:3309800-3317800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
48	chr4:3309800-3318000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr4:3309800-3319800	Weak transcription	Brain Cingulate Gyrus	brain
50	chr4:3310000-3318000	Weak transcription	HUVEC	blood vessel

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