Variant report

Variant	rs562384302
Chromosome Location	chr3:178898357-178898358
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr3:178866142..178869111-chr3:178896590..178898676,2	MCF-7	breast:
2	chr3:178896021..178899660-chr3:178900904..178904164,4	K562	blood:
3	chr3:178898160..178900976-chr3:178901666..178903620,2	K562	blood:
4	chr3:178888452..178890564-chr3:178897631..178899148,2	MCF-7	breast:
5	chr3:178892192..178894702-chr3:178896410..178899147,2	K562	blood:

Variant related genes	Relation type
ENSG00000121879	Chromatin interaction

Extended variants
information (count: 5 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv998253	chr3:178622707-179196274	Flanking Active TSS Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer 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	52 gene(s)	inside rSNPs	diseases
2	nsv536814	chr3:178622707-179196274	Weak transcription Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
3	esv3354111	chr3:178833305-179156908	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv963506	chr3:178897583-178904531	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv524471	chr3:178897674-178903264	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:178867800-178900200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr3:178883800-178905800	Weak transcription	Fetal Kidney	kidney
3	chr3:178887200-178912000	Weak transcription	Thymus	Thymus
4	chr3:178888000-178898800	Weak transcription	Fetal Brain Male	brain
5	chr3:178893000-178900200	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr3:178893800-178900800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr3:178894200-178899000	Weak transcription	Primary B cells from cord blood	blood
8	chr3:178894200-178905800	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr3:178894400-178903400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
10	chr3:178895400-178899000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
11	chr3:178895600-178899200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
12	chr3:178895600-178904400	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr3:178896200-178900000	Enhancers	Primary T cells from cord blood	blood
14	chr3:178896200-178900600	Enhancers	Primary T helper cells fromperipheralblood	blood
15	chr3:178896200-178903600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
16	chr3:178896400-178900000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr3:178896400-178902800	Enhancers	Primary T helper naive cells from peripheral blood	blood
18	chr3:178896400-178905000	Enhancers	Breast Myoepithelial Primary Cells	Breast
19	chr3:178896600-178898600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
20	chr3:178896600-178898600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr3:178896600-178898800	Enhancers	Fetal Lung	lung
22	chr3:178896600-178899000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
23	chr3:178896600-178899200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
24	chr3:178896600-178900000	Weak transcription	Primary monocytes fromperipheralblood	blood
25	chr3:178896600-178900600	Enhancers	Duodenum Smooth Muscle	Duodenum
26	chr3:178896600-178900800	Enhancers	Primary T killer memory cells from peripheral blood	blood
27	chr3:178896600-178902200	Enhancers	Skeletal Muscle Male	skeletal muscle
28	chr3:178896600-178904200	Enhancers	Colon Smooth Muscle	Colon
29	chr3:178896800-178898600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr3:178896800-178900200	Weak transcription	Left Ventricle	heart
31	chr3:178896800-178900200	Weak transcription	Right Atrium	heart
32	chr3:178896800-178902000	Weak transcription	Gastric	stomach
33	chr3:178896800-178912200	Weak transcription	Primary T cells fromperipheralblood	blood
34	chr3:178896800-178912400	Weak transcription	Duodenum Mucosa	Duodenum
35	chr3:178897000-178898800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr3:178897000-178900000	Weak transcription	Primary B cells from peripheral blood	blood
37	chr3:178897000-178900200	Weak transcription	Ovary	ovary
38	chr3:178897000-178900800	Enhancers	HSMM	muscle
39	chr3:178897000-178901800	Weak transcription	Psoas Muscle	Psoas
40	chr3:178897000-178902000	Weak transcription	Aorta	Aorta
41	chr3:178897400-178898600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr3:178897400-178899000	Enhancers	Skeletal Muscle Female	skeletal muscle
43	chr3:178897400-178900800	Enhancers	Osteobl	bone
44	chr3:178897600-178898600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr3:178897600-178898600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr3:178897600-178898800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr3:178897600-178899000	Enhancers	Small Intestine	intestine
48	chr3:178897600-178899000	Enhancers	HSMMtube	muscle
49	chr3:178897600-178899200	Enhancers	ES-I3 Cell Line	embryonic stem cell
50	chr3:178897600-178899200	Enhancers	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links