Variant report

Variant	rs3774963
Chromosome Location	chr4:103519365-103519366
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:103513440..103517294-chr4:103519105..103521250,3	MCF-7	breast:
2	chr4:103517813..103519887-chr4:103521880..103524711,2	K562	blood:
3	chr4:103517631..103521191-chr4:103525485..103528516,3	K562	blood:
4	chr4:103514947..103516619-chr4:103518321..103520402,2	K562	blood:

Variant related genes	Relation type
ENSG00000109320	Chromatin interaction

Extended variants
information (count: 72 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:70)

rs_ID	r²[population]
rs1005819	1.00[JPT][hapmap]
rs1020759	0.90[JPT][hapmap]
rs1020760	1.00[JPT][hapmap]
rs11722146	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs11723120	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs118882	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs12509403	0.95[CEU][hapmap]
rs12509517	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs12648696	0.94[CHB][hapmap]
rs1585213	0.90[JPT][hapmap]
rs1585215	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs1598859	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1599961	0.90[JPT][hapmap]
rs1609798	0.82[CHB][hapmap]
rs17032705	0.90[JPT][hapmap]
rs170731	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs1801	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[YRI][hapmap]
rs2168805	0.86[JPT][hapmap]
rs230491	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs230492	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230493	0.84[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230495	0.90[JPT][hapmap]
rs230496	0.90[JPT][hapmap]
rs230498	0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230500	0.88[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230504	0.84[CEU][hapmap];0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230505	0.90[JPT][hapmap]
rs230509	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs230514	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs230515	0.94[CHB][hapmap];0.89[JPT][hapmap]
rs230516	0.95[CHB][hapmap];0.89[JPT][hapmap]
rs230519	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230520	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230521	0.91[JPT][hapmap]
rs230525	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230526	0.90[JPT][hapmap]
rs230528	0.90[JPT][hapmap]
rs230529	0.90[JPT][hapmap]
rs230531	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230532	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230533	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs230534	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230535	0.95[CHB][hapmap];0.90[JPT][hapmap]
rs230539	1.00[CHB][hapmap];0.86[JPT][hapmap]
rs230540	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs230541	1.00[JPT][hapmap]
rs230542	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3755867	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[YRI][hapmap]
rs3774933	0.90[JPT][hapmap]
rs3774936	0.87[CHB][hapmap];0.91[JPT][hapmap]
rs3774937	0.86[CHB][hapmap];0.90[JPT][hapmap]
rs3774938	0.91[JPT][hapmap]
rs3774956	1.00[JPT][hapmap]
rs3774959	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3774964	1.00[JPT][hapmap]
rs3817685	1.00[JPT][hapmap]
rs3821958	1.00[JPT][hapmap]
rs4235404	0.85[CHB][hapmap];0.91[JPT][hapmap]
rs4648011	0.90[JPT][hapmap]
rs4648055	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4648058	0.81[CHB][hapmap];1.00[JPT][hapmap]
rs4648068	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4648133	0.88[CEU][hapmap];0.86[CHB][hapmap]
rs4698858	1.00[JPT][hapmap]
rs4698861	0.87[CEU][hapmap]
rs4698863	0.85[CEU][hapmap];0.81[JPT][hapmap]
rs4699030	1.00[JPT][hapmap]
rs747559	0.90[JPT][hapmap]
rs9790601	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap]
rs980455	0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830020	chr4:103387343-103581284	Strong transcription Weak transcription Genic enhancers Enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1003490	chr4:103391483-103521772	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:103473400-103524600	Weak transcription	Fetal Brain Male	brain
2	chr4:103483400-103541600	Weak transcription	K562	blood
3	chr4:103488200-103520000	Weak transcription	Fetal Kidney	kidney
4	chr4:103497600-103533400	Strong transcription	Primary B cells from peripheral blood	blood
5	chr4:103498800-103520600	Weak transcription	Fetal Brain Female	brain
6	chr4:103500200-103527600	Weak transcription	Pancreas	Pancrea
7	chr4:103500400-103522600	Weak transcription	Psoas Muscle	Psoas
8	chr4:103500400-103528200	Weak transcription	Right Ventricle	heart
9	chr4:103502600-103532800	Weak transcription	Brain Germinal Matrix	brain
10	chr4:103508200-103522800	Genic enhancers	Primary T helper 17 cells PMA-I stimulated	--
11	chr4:103508400-103522400	Weak transcription	Fetal Stomach	stomach
12	chr4:103511200-103525000	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:103512400-103521600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr4:103512600-103527600	Weak transcription	Ovary	ovary
15	chr4:103512800-103531800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
16	chr4:103513000-103542000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr4:103513200-103522800	Weak transcription	Fetal Intestine Small	intestine
18	chr4:103513200-103536200	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr4:103514000-103523400	Strong transcription	HepG2	liver
20	chr4:103514200-103519800	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
21	chr4:103514400-103526000	Strong transcription	Fetal Intestine Large	intestine
22	chr4:103514600-103535800	Strong transcription	Adipose Nuclei	Adipose
23	chr4:103514600-103538200	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
24	chr4:103514600-103539000	Strong transcription	Primary neutrophils fromperipheralblood	blood
25	chr4:103514800-103519800	Strong transcription	NHDF-Ad	bronchial
26	chr4:103515000-103539000	Strong transcription	Monocytes-CD14+_RO01746	blood
27	chr4:103515200-103519800	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr4:103515200-103522800	Strong transcription	Liver	Liver
29	chr4:103515200-103533200	Strong transcription	Primary B cells from cord blood	blood
30	chr4:103515200-103533400	Strong transcription	Primary hematopoietic stem cells	blood
31	chr4:103515200-103533600	Strong transcription	Duodenum Mucosa	Duodenum
32	chr4:103515200-103538800	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr4:103515400-103520200	Strong transcription	Colon Smooth Muscle	Colon
34	chr4:103515400-103523200	Strong transcription	Dnd41	blood
35	chr4:103515400-103533200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr4:103515400-103533400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
37	chr4:103515400-103533400	Strong transcription	Rectal Mucosa Donor 29	rectum
38	chr4:103515400-103533600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr4:103515400-103538800	Strong transcription	Duodenum Smooth Muscle	Duodenum
40	chr4:103515400-103538800	Strong transcription	Skeletal Muscle Female	skeletal muscle
41	chr4:103515600-103519600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
42	chr4:103515600-103520000	Strong transcription	Brain Anterior Caudate	brain
43	chr4:103515600-103520000	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr4:103515600-103520000	Strong transcription	Placenta	Placenta
45	chr4:103515600-103522400	Strong transcription	Brain Hippocampus Middle	brain
46	chr4:103515600-103533400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr4:103515600-103535600	Strong transcription	Fetal Muscle Trunk	muscle
48	chr4:103515800-103519400	Strong transcription	HMEC	breast
49	chr4:103515800-103519600	Genic enhancers	Primary T helper memory cells from peripheral blood 1	blood
50	chr4:103515800-103519600	Strong transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links