Variant report

Variant	rs554909365
Chromosome Location	chr3:46925767-46925768
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:46733801..46735413-chr3:46924430..46926212,2	MCF-7	breast:
2	chr3:46917376..46920621-chr3:46922888..46926605,5	K562	blood:
3	chr3:46923291..46931131-chr3:46931662..46935716,9	K562	blood:
4	chr3:46917885..46923537-chr3:46925586..46931315,6	MCF-7	breast:
5	chr3:46924894..46926955-chr3:46938452..46941314,2	K562	blood:

Variant related genes	Relation type
ENSG00000178038	Chromatin interaction
ENSG00000160801	Chromatin interaction

Extended variants
information (count: 14 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1007449	chr3:46652343-46986578	Bivalent Enhancer Weak transcription Transcr. at gene 5' and 3' Enhancers ZNF genes & repeats Genic enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv536554	chr3:46652343-46986578	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
3	esv2757869	chr3:46680452-46972489	Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
4	esv2759147	chr3:46680452-46972489	Genic enhancers Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
5	nsv536558	chr3:46706571-47024756	Enhancers Bivalent Enhancer Active TSS Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
6	nsv915922	chr3:46768104-47009805	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
7	nsv590205	chr3:46852679-46929546	Weak transcription Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
8	nsv1003979	chr3:46853374-46943854	Flanking Active TSS Bivalent Enhancer Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
9	nsv590206	chr3:46873957-46935527	Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
10	nsv876752	chr3:46879831-46967040	Bivalent/Poised TSS Genic enhancers Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
11	nsv876753	chr3:46884552-46957298	Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
12	nsv876754	chr3:46884552-46967040	Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
13	nsv876755	chr3:46895109-47061183	Genic enhancers Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
14	esv3344281	chr3:46923473-46926321	Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer Enhancers Active TSS Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:46922600-46926000	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
2	chr3:46923200-46926600	Active TSS	Right Atrium	heart
3	chr3:46923800-46925800	Active TSS	Brain Substantia Nigra	brain
4	chr3:46924400-46925800	Active TSS	Brain Angular Gyrus	brain
5	chr3:46924400-46925800	Bivalent/Poised TSS	Brain Hippocampus Middle	brain
6	chr3:46924400-46926600	Active TSS	Left Ventricle	heart
7	chr3:46924800-46925800	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
8	chr3:46925000-46925800	Flanking Bivalent TSS/Enh	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr3:46925000-46925800	Flanking Active TSS	Adipose Nuclei	Adipose
10	chr3:46925000-46925800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
11	chr3:46925000-46926000	Flanking Bivalent TSS/Enh	Stomach Smooth Muscle	stomach
12	chr3:46925000-46926600	Bivalent/Poised TSS	Fetal Kidney	kidney
13	chr3:46925000-46926800	Enhancers	Fetal Heart	heart
14	chr3:46925200-46925800	Bivalent Enhancer	ES-WA7 Cell Line	embryonic stem cell
15	chr3:46925200-46925800	Bivalent Enhancer	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
16	chr3:46925200-46925800	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
17	chr3:46925200-46925800	Flanking Bivalent TSS/Enh	HUES64 Cell Line	embryonic stem cell
18	chr3:46925200-46925800	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
19	chr3:46925200-46926200	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
20	chr3:46925200-46926200	Bivalent Enhancer	Skeletal Muscle Female	skeletal muscle
21	chr3:46925200-46926400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
22	chr3:46925200-46926800	Flanking Bivalent TSS/Enh	Fetal Lung	lung
23	chr3:46925200-46933000	Weak transcription	Pancreas	Pancrea
24	chr3:46925400-46925800	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
25	chr3:46925400-46925800	Bivalent Enhancer	Ganglion Eminence derived primary cultured neurospheres	brain
26	chr3:46925400-46925800	Enhancers	Ovary	ovary
27	chr3:46925400-46925800	Active TSS	Right Ventricle	heart
28	chr3:46925400-46926000	Bivalent Enhancer	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr3:46925400-46926000	Bivalent Enhancer	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr3:46925400-46926000	Bivalent Enhancer	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr3:46925400-46926200	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr3:46925400-46926200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
33	chr3:46925400-46926400	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
34	chr3:46925400-46926400	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr3:46925400-46926600	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
36	chr3:46925400-46926600	Enhancers	Placenta Amnion	Placenta Amnion
37	chr3:46925400-46930200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr3:46925400-46930400	Weak transcription	Lung	lung
39	chr3:46925600-46925800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
40	chr3:46925600-46925800	Flanking Bivalent TSS/Enh	Colon Smooth Muscle	Colon
41	chr3:46925600-46925800	Bivalent/Poised TSS	Fetal Brain Male	brain
42	chr3:46925600-46926000	Enhancers	Brain Cingulate Gyrus	brain
43	chr3:46925600-46926200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
44	chr3:46925600-46926600	Active TSS	Brain Anterior Caudate	brain
45	chr3:46925600-46926600	Bivalent Enhancer	Fetal Muscle Leg	muscle
46	chr3:46925600-46927000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
47	chr3:46925600-46927200	Bivalent Enhancer	Placenta	Placenta
48	chr3:46925600-46927200	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
49	chr3:46925600-46927400	Bivalent/Poised TSS	Fetal Adrenal Gland	Adrenal Gland
50	chr3:46925600-46927600	Bivalent Enhancer	ES-I3 Cell Line	embryonic stem cell

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