Variant report

Variant	rs4530604
Chromosome Location	chr4:47495197-47495198
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	PML	chr4:47495065-47495909	GM12878	blood:	n/a	n/a
2	MTA3	chr4:47495108-47496359	GM12878	blood:	n/a	n/a
3	POLR2A	chr4:47495155-47496443	GM12878	blood:	n/a	n/a
4	POLR2A	chr4:47495195-47495751	GM12892	blood:	n/a	n/a
5	POLR2A	chr4:47495169-47495663	GM12891	blood:	n/a	n/a
6	POLR2A	chr4:47495194-47495739	GM12892	blood:	n/a	n/a
7	POLR2A	chr4:47495195-47495704	GM12891	blood:	n/a	n/a
8	ATF2	chr4:47495167-47495817	GM12878	blood:	n/a	n/a
9	POU2F2	chr4:47495164-47495996	GM12878	blood:	n/a	chr4:47495636-47495651 chr4:47495640-47495655 chr4:47495746-47495759
10	POLR2A	chr4:47495127-47495640	GM12891	blood:	n/a	n/a
11	POLR2A	chr4:47495152-47495686	GM12892	blood:	n/a	n/a
12	POLR2A	chr4:47495134-47495788	GM12892	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:47494690..47496480-chr4:47498763..47501727,2	K562	blood:

Variant related genes	Relation type
ENSG00000242431	TF binding region

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10030956	0.94[AFR][1000 genomes]
rs10737953	0.94[AFR][1000 genomes]
rs10805156	0.94[AFR][1000 genomes]
rs4432727	0.88[AFR][1000 genomes]
rs4533744	1.00[AFR][1000 genomes]
rs4572850	0.86[AFR][1000 genomes]
rs4618289	0.97[AFR][1000 genomes]
rs4695238	0.88[AFR][1000 genomes]
rs6447555	0.88[AFR][1000 genomes]
rs6447556	0.88[AFR][1000 genomes]
rs6447557	0.83[AFR][1000 genomes]
rs6447558	0.86[AFR][1000 genomes]
rs6447559	0.91[AFR][1000 genomes]
rs6447560	0.94[AFR][1000 genomes]
rs6815132	0.89[AFR][1000 genomes]
rs6851361	0.83[AFR][1000 genomes]
rs7654625	0.88[AFR][1000 genomes]
rs7671616	1.00[AFR][1000 genomes]
rs7680740	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879005	chr4:47408838-47548254	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
2	nsv829923	chr4:47436139-47678443	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
3	nsv1008515	chr4:47488431-47906835	Weak transcription Strong transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
4	nsv948568	chr4:47488431-47907524	Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
5	nsv1004939	chr4:47488573-47901460	Bivalent Enhancer Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv537080	chr4:47488573-47901460	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv997471	chr4:47489412-47895223	Weak transcription Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
8	nsv998892	chr4:47493552-47863354	Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
9	nsv537081	chr4:47493552-47863354	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
10	nsv1000337	chr4:47493907-47902019	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	10 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:58 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:47488000-47533800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr4:47488600-47495400	Weak transcription	Primary hematopoietic stem cells	blood
3	chr4:47488600-47495600	Weak transcription	Small Intestine	intestine
4	chr4:47488600-47500000	Weak transcription	Fetal Brain Male	brain
5	chr4:47488600-47514400	Weak transcription	Lung	lung
6	chr4:47488600-47524600	Weak transcription	Fetal Intestine Small	intestine
7	chr4:47488800-47495200	Weak transcription	Fetal Kidney	kidney
8	chr4:47488800-47495400	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr4:47488800-47495600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr4:47488800-47495600	Weak transcription	Fetal Lung	lung
11	chr4:47488800-47500800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
12	chr4:47488800-47502400	Weak transcription	Duodenum Mucosa	Duodenum
13	chr4:47488800-47502600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr4:47488800-47559800	Weak transcription	Right Ventricle	heart
15	chr4:47489000-47495400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr4:47489000-47495400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr4:47489000-47495800	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr4:47489000-47500600	Weak transcription	Primary monocytes fromperipheralblood	blood
19	chr4:47489000-47512000	Weak transcription	Cortex derived primary cultured neurospheres	brain
20	chr4:47489000-47514400	Weak transcription	Fetal Stomach	stomach
21	chr4:47489000-47514600	Weak transcription	Fetal Muscle Leg	muscle
22	chr4:47489200-47533600	Weak transcription	Esophagus	oesophagus
23	chr4:47489400-47495800	Weak transcription	Brain Angular Gyrus	brain
24	chr4:47489600-47511800	Weak transcription	HMEC	breast
25	chr4:47490000-47495800	Weak transcription	Osteobl	bone
26	chr4:47490000-47501800	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr4:47490000-47502600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
28	chr4:47490000-47511800	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr4:47490000-47512200	Weak transcription	HSMMtube	muscle
30	chr4:47490000-47514800	Weak transcription	Placenta	Placenta
31	chr4:47490200-47514200	Weak transcription	NH-A	brain
32	chr4:47491000-47495600	Weak transcription	Left Ventricle	heart
33	chr4:47491000-47495600	Weak transcription	Psoas Muscle	Psoas
34	chr4:47491200-47500400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr4:47492800-47495200	Weak transcription	Brain Substantia Nigra	brain
36	chr4:47492800-47495400	Weak transcription	Brain Anterior Caudate	brain
37	chr4:47492800-47495400	Weak transcription	Brain Cingulate Gyrus	brain
38	chr4:47492800-47495600	Weak transcription	Ovary	ovary
39	chr4:47492800-47495600	Weak transcription	Sigmoid Colon	Sigmoid Colon
40	chr4:47492800-47495800	Weak transcription	Spleen	Spleen
41	chr4:47492800-47496200	Enhancers	Dnd41	blood
42	chr4:47492800-47499400	Weak transcription	Liver	Liver
43	chr4:47492800-47514400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr4:47493000-47495600	Weak transcription	Brain Hippocampus Middle	brain
45	chr4:47493000-47500200	Weak transcription	Colon Smooth Muscle	Colon
46	chr4:47493000-47505600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
47	chr4:47493400-47495400	Weak transcription	Primary B cells from peripheral blood	blood
48	chr4:47493400-47499200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
49	chr4:47493600-47495600	Weak transcription	Aorta	Aorta
50	chr4:47493600-47512000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links