Variant report

Variant	rs555762033
Chromosome Location	chr4:3389951-3389952
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:3294234..3297919-chr4:3387466..3390148,3	MCF-7	breast:
2	chr4:3385272..3387718-chr4:3389014..3391654,3	MCF-7	breast:
3	chr4:3388642..3391528-chr4:3405332..3407484,2	MCF-7	breast:
4	chr4:3388406..3390149-chr4:3442407..3445401,2	MCF-7	breast:
5	chr4:3388256..3390546-chr4:3393263..3395293,2	MCF-7	breast:
6	chr4:3356602..3361196-chr4:3388835..3391854,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000109758	Chromatin interaction
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	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
4	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
5	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
6	nsv1007847	chr4:3317904-3527357	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
7	nsv537001	chr4:3317904-3527357	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
8	nsv878463	chr4:3363994-3498896	Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
9	nsv428435	chr4:3386773-3623321	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
10	esv2328657	chr4:3389734-3390188	Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
11	nsv292616	chr4:3389923-3389956	Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
12	esv1005289	chr4:3389925-3389956	Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:3378400-3390400	Weak transcription	Ovary	ovary
2	chr4:3386200-3390000	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:3386200-3391400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr4:3386400-3390800	Enhancers	Fetal Lung	lung
5	chr4:3386400-3391200	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr4:3386600-3390800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr4:3386600-3392400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
8	chr4:3386600-3393800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
9	chr4:3386800-3393600	Enhancers	H1 Cell Line	embryonic stem cell
10	chr4:3386800-3393600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
11	chr4:3386800-3395800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr4:3387600-3390600	Enhancers	Primary hematopoietic stem cells short term culture	blood
13	chr4:3387600-3390600	Enhancers	Fetal Adrenal Gland	Adrenal Gland
14	chr4:3387600-3392600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
15	chr4:3387800-3391000	Active TSS	Esophagus	oesophagus
16	chr4:3388000-3390200	Active TSS	HMEC	breast
17	chr4:3388000-3394400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr4:3388400-3390000	Enhancers	Fetal Kidney	kidney
19	chr4:3388400-3391200	Enhancers	HUES64 Cell Line	embryonic stem cell
20	chr4:3388400-3392000	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
21	chr4:3388400-3393600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
22	chr4:3388600-3390000	Enhancers	Left Ventricle	heart
23	chr4:3388600-3392000	Enhancers	ES-I3 Cell Line	embryonic stem cell
24	chr4:3388600-3392400	Enhancers	Fetal Muscle Trunk	muscle
25	chr4:3388600-3394400	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr4:3388800-3390000	Enhancers	Gastric	stomach
27	chr4:3388800-3390000	Enhancers	Pancreas	Pancrea
28	chr4:3388800-3390200	Enhancers	H9 Cell Line	embryonic stem cell
29	chr4:3388800-3390200	Enhancers	Brain Angular Gyrus	brain
30	chr4:3388800-3390800	Enhancers	iPS-18 Cell Line	embryonic stem cell
31	chr4:3388800-3391200	Enhancers	Fetal Intestine Small	intestine
32	chr4:3388800-3391400	Enhancers	Fetal Heart	heart
33	chr4:3388800-3391600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
34	chr4:3388800-3391800	Enhancers	Fetal Muscle Leg	muscle
35	chr4:3388800-3392000	Enhancers	Skeletal Muscle Female	skeletal muscle
36	chr4:3388800-3392600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
37	chr4:3388800-3392600	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
38	chr4:3388800-3392800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
39	chr4:3388800-3394400	Enhancers	HUES48 Cell Line	embryonic stem cell
40	chr4:3389000-3390000	Active TSS	Rectal Mucosa Donor 29	rectum
41	chr4:3389000-3390600	Enhancers	Fetal Brain Male	brain
42	chr4:3389000-3390600	Flanking Active TSS	GM12878-XiMat	blood
43	chr4:3389000-3391600	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
44	chr4:3389000-3391800	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
45	chr4:3389000-3393400	Enhancers	Brain Germinal Matrix	brain
46	chr4:3389200-3390000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
47	chr4:3389200-3390000	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
48	chr4:3389200-3390000	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr4:3389200-3390000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
50	chr4:3389200-3390000	Flanking Active TSS	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links