Variant report

Variant	rs6779901
Chromosome Location	chr3:135897221-135897222
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr3:135897079..135899316-chr3:135913540..135917066,4	MCF-7	breast:
2	chr3:135886156..135888628-chr3:135897104..135900045,2	MCF-7	breast:
3	chr3:135895651..135897266-chr3:135913229..135915122,2	K562	blood:
4	chr3:135892696..135894968-chr3:135897212..135899768,3	MCF-7	breast:
5	chr3:135897191..135900047-chr3:135906521..135908665,2	MCF-7	breast:
6	chr3:135887141..135889698-chr3:135896091..135898192,2	K562	blood:
7	chr3:135895546..135897373-chr3:135913107..135914928,2	K562	blood:
8	chr3:135896850..135898541-chr3:135910028..135912852,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000174579	Chromatin interaction

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs6439606	1.00[AMR][1000 genomes]
rs6784017	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6800142	1.00[AMR][1000 genomes]
rs6802901	1.00[AMR][1000 genomes]
rs7613398	1.00[ASW][hapmap];0.81[LWK][hapmap];0.85[MKK][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7618114	1.00[ASW][hapmap];0.91[LWK][hapmap];1.00[MKK][hapmap];1.00[AMR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869409	chr3:135649101-136164174	Strong transcription Genic enhancers Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:82 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:135862000-135904800	Weak transcription	Hela-S3	cervix
2	chr3:135871000-135897600	Weak transcription	Aorta	Aorta
3	chr3:135871200-135905000	Weak transcription	Fetal Stomach	stomach
4	chr3:135872800-135903600	Weak transcription	Thymus	Thymus
5	chr3:135874800-135897600	Weak transcription	Gastric	stomach
6	chr3:135880000-135906600	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr3:135882800-135905200	Weak transcription	Fetal Muscle Leg	muscle
8	chr3:135883400-135901800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
9	chr3:135883800-135901200	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr3:135885600-135897800	Weak transcription	Fetal Thymus	thymus
11	chr3:135888800-135899400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
12	chr3:135889200-135905000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
13	chr3:135889400-135901000	Enhancers	Primary T helper cells PMA-I stimulated	--
14	chr3:135889400-135907000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
15	chr3:135889400-135910400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
16	chr3:135889800-135905000	Enhancers	Primary T helper naive cells from peripheral blood	blood
17	chr3:135890000-135903800	Enhancers	Primary T killer memory cells from peripheral blood	blood
18	chr3:135890400-135897800	Weak transcription	Dnd41	blood
19	chr3:135890400-135898600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr3:135890400-135905000	Weak transcription	NHDF-Ad	bronchial
21	chr3:135890400-135909600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
22	chr3:135891000-135897600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr3:135891000-135898200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr3:135891000-135901200	Weak transcription	Primary hematopoietic stem cells	blood
25	chr3:135891000-135901200	Weak transcription	NH-A	brain
26	chr3:135891000-135905000	Weak transcription	Brain Substantia Nigra	brain
27	chr3:135891400-135897800	Weak transcription	Primary B cells from cord blood	blood
28	chr3:135891400-135904200	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr3:135891600-135898400	Weak transcription	GM12878-XiMat	blood
30	chr3:135892800-135900400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
31	chr3:135892800-135901200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr3:135893000-135900000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
33	chr3:135893400-135901000	Weak transcription	HepG2	liver
34	chr3:135893600-135897800	Weak transcription	K562	blood
35	chr3:135893600-135898000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
36	chr3:135893600-135898000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr3:135893600-135898000	Weak transcription	Adipose Nuclei	Adipose
38	chr3:135893600-135898200	Weak transcription	NHEK	skin
39	chr3:135893600-135899800	Weak transcription	Primary monocytes fromperipheralblood	blood
40	chr3:135893600-135900200	Weak transcription	HMEC	breast
41	chr3:135893600-135901200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr3:135893600-135901200	Weak transcription	Brain Angular Gyrus	brain
43	chr3:135893600-135901200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
44	chr3:135893600-135904800	Weak transcription	Skeletal Muscle Female	skeletal muscle
45	chr3:135893600-135905000	Weak transcription	Rectal Smooth Muscle	rectum
46	chr3:135893600-135910400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr3:135893800-135898000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr3:135894000-135897600	Weak transcription	Psoas Muscle	Psoas
49	chr3:135894000-135898000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
50	chr3:135894400-135906800	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links