Variant report

Variant	rs4407549
Chromosome Location	chr4:186599351-186599352
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:186595068..186597378-chr4:186599037..186600656,2	K562	blood:
2	chr4:186595068..186597102-chr4:186598930..186600537,2	K562	blood:

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10003750	0.93[ASN][1000 genomes]
rs10011292	0.88[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap]
rs10016122	1.00[CEU][hapmap]
rs10017672	0.88[CEU][hapmap]
rs10017940	0.87[CEU][hapmap]
rs10019263	1.00[CEU][hapmap]
rs11132338	1.00[CEU][hapmap];0.82[JPT][hapmap]
rs11132339	0.85[CEU][hapmap]
rs1124024	1.00[CEU][hapmap]
rs1542847	0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1566350	1.00[CEU][hapmap]
rs2030143	1.00[CEU][hapmap]
rs2030144	1.00[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap]
rs2047499	0.85[CEU][hapmap]
rs4376189	0.86[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4640708	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4862561	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4862565	0.88[CEU][hapmap]
rs4862566	0.86[CHB][hapmap];0.82[JPT][hapmap]
rs6820044	1.00[CEU][hapmap]
rs6825114	1.00[CEU][hapmap]
rs6825669	1.00[CEU][hapmap]
rs6826210	1.00[CEU][hapmap]
rs6836237	0.88[CEU][hapmap]
rs6837079	0.88[CEU][hapmap]
rs7340885	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.83[EUR][1000 genomes]
rs7688359	1.00[CEU][hapmap];1.00[CHB][hapmap];0.82[JPT][hapmap];0.84[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7696530	0.84[EUR][1000 genomes]
rs950590	0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432684	chr4:186412851-186742851	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
2	nsv830169	chr4:186455064-186638163	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv1028146	chr4:186503899-187338335	Strong transcription Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
4	nsv1020731	chr4:186512433-186724031	Enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
5	nsv1023917	chr4:186533075-186997806	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
6	nsv537420	chr4:186533075-186997806	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:41 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:186562800-186600000	Weak transcription	Fetal Kidney	kidney
2	chr4:186577800-186604000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr4:186579000-186600000	Weak transcription	HUES64 Cell Line	embryonic stem cell
4	chr4:186579000-186602600	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr4:186579200-186602800	Weak transcription	Osteobl	bone
6	chr4:186579200-186603200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:186583000-186602600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr4:186583200-186603200	Weak transcription	HUVEC	blood vessel
9	chr4:186583400-186600400	Weak transcription	Brain Anterior Caudate	brain
10	chr4:186583400-186607200	Weak transcription	Fetal Intestine Large	intestine
11	chr4:186583800-186599800	Weak transcription	Placenta	Placenta
12	chr4:186583800-186602800	Weak transcription	Esophagus	oesophagus
13	chr4:186583800-186604800	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr4:186584000-186602800	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr4:186587200-186610600	Weak transcription	Lung	lung
16	chr4:186594400-186604000	Weak transcription	Right Atrium	heart
17	chr4:186595000-186599600	Strong transcription	Liver	Liver
18	chr4:186595200-186599600	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
19	chr4:186595200-186606000	Weak transcription	Rectal Smooth Muscle	rectum
20	chr4:186595800-186599600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr4:186596800-186602800	Weak transcription	Spleen	Spleen
22	chr4:186596800-186606000	Weak transcription	Right Ventricle	heart
23	chr4:186596800-186610600	Weak transcription	Gastric	stomach
24	chr4:186597200-186626000	Weak transcription	HepG2	liver
25	chr4:186597800-186599800	Strong transcription	HSMMtube	muscle
26	chr4:186597800-186602800	Weak transcription	NH-A	brain
27	chr4:186598000-186599600	Genic enhancers	Fetal Heart	heart
28	chr4:186598200-186599600	Strong transcription	ES-I3 Cell Line	embryonic stem cell
29	chr4:186598400-186613200	Weak transcription	Fetal Stomach	stomach
30	chr4:186598600-186599800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr4:186598600-186599800	Strong transcription	Left Ventricle	heart
32	chr4:186598600-186600400	Weak transcription	Pancreatic Islets	Pancreatic Islet
33	chr4:186598600-186602000	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr4:186598600-186603400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
35	chr4:186598600-186605000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr4:186598600-186610400	Weak transcription	Aorta	Aorta
37	chr4:186598600-186610600	Weak transcription	Pancreas	Pancrea
38	chr4:186598600-186615800	Weak transcription	Fetal Intestine Small	intestine
39	chr4:186598800-186599600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr4:186599000-186600600	Weak transcription	Ovary	ovary
41	chr4:186599000-186602800	Weak transcription	HSMM	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links