Variant report

Variant	rs143055638
Chromosome Location	chr4:3308826-3308827
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr4:3308684-3308884	MCF10A-Er-Src	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr4:3297413..3300399-chr4:3305342..3309576,4	MCF-7	breast:
2	chr4:3297687..3301019-chr4:3306995..3308843,3	K562	blood:
3	chr4:3307561..3309945-chr4:3316347..3319248,2	MCF-7	breast:
4	chr4:3293251..3296512-chr4:3305842..3309963,7	MCF-7	breast:

Variant related genes	Relation type
RGS12	TF binding region
ENSG00000159788	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 0)

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	nsv878459	chr4:3235518-3310831	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	7 gene(s)	inside rSNPs	diseases
8	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
9	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
10	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
11	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
12	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

No data

Chromatin state (count:96 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3296600-3318600	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr4:3299200-3310000	Enhancers	HUVEC	blood vessel
3	chr4:3299600-3318600	Weak transcription	Aorta	Aorta
4	chr4:3300800-3309000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
5	chr4:3301000-3310400	Enhancers	Fetal Muscle Leg	muscle
6	chr4:3301200-3350000	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr4:3301600-3312400	Enhancers	Fetal Muscle Trunk	muscle
8	chr4:3303200-3310800	Enhancers	Fetal Brain Male	brain
9	chr4:3303600-3310600	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr4:3304000-3313000	Weak transcription	HepG2	liver
11	chr4:3304200-3310600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr4:3304400-3309800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr4:3304400-3310600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
14	chr4:3304600-3309000	Enhancers	Primary hematopoietic stem cells	blood
15	chr4:3304800-3318600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr4:3305000-3309000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr4:3305000-3309200	Enhancers	Primary hematopoietic stem cells short term culture	blood
18	chr4:3306000-3309800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
19	chr4:3306000-3310400	Enhancers	Spleen	Spleen
20	chr4:3306600-3309800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr4:3306600-3312600	Enhancers	Lung	lung
22	chr4:3306600-3320600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
23	chr4:3306800-3312400	Enhancers	Skeletal Muscle Male	skeletal muscle
24	chr4:3306800-3312800	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr4:3307000-3309800	Enhancers	Brain Cingulate Gyrus	brain
26	chr4:3307000-3310600	Enhancers	Brain Germinal Matrix	brain
27	chr4:3307000-3310600	Enhancers	Fetal Brain Female	brain
28	chr4:3307000-3320600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
29	chr4:3307200-3309200	Enhancers	Stomach Smooth Muscle	stomach
30	chr4:3307200-3318000	Weak transcription	Liver	Liver
31	chr4:3307200-3327000	Weak transcription	Fetal Kidney	kidney
32	chr4:3307400-3312200	Weak transcription	Rectal Mucosa Donor 29	rectum
33	chr4:3307400-3325600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
34	chr4:3307400-3326800	Weak transcription	A549	lung
35	chr4:3307600-3309000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
36	chr4:3307600-3309400	Enhancers	Fetal Thymus	thymus
37	chr4:3307600-3315000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
38	chr4:3307600-3322200	Weak transcription	Rectal Smooth Muscle	rectum
39	chr4:3307600-3323000	Weak transcription	NH-A	brain
40	chr4:3307600-3323600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr4:3307800-3309000	Enhancers	Brain Anterior Caudate	brain
42	chr4:3307800-3309000	Weak transcription	Fetal Lung	lung
43	chr4:3307800-3311600	Weak transcription	Fetal Intestine Large	intestine
44	chr4:3307800-3312200	Weak transcription	Rectal Mucosa Donor 31	rectum
45	chr4:3307800-3319000	Weak transcription	Colon Smooth Muscle	Colon
46	chr4:3308000-3309600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
47	chr4:3308000-3310400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr4:3308000-3311600	Weak transcription	Duodenum Mucosa	Duodenum
49	chr4:3308000-3313400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr4:3308000-3318200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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