Variant report

Variant	rs11725522
Chromosome Location	chr4:15980975-15980976
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10488967	0.90[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17478107	0.90[CEU][hapmap];0.83[CHD][hapmap];0.94[MEX][hapmap];0.82[TSI][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3796853	1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs3796854	0.97[ASN][1000 genomes]
rs3796858	0.86[CEU][hapmap];0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3796859	0.85[CEU][hapmap];0.91[EUR][1000 genomes]
rs3796860	0.91[EUR][1000 genomes]
rs3796861	1.00[ASW][hapmap];0.86[CEU][hapmap];0.84[GIH][hapmap];0.91[TSI][hapmap];0.91[EUR][1000 genomes]
rs3796862	0.86[CEU][hapmap];0.89[EUR][1000 genomes]
rs55768074	0.94[ASN][1000 genomes]
rs62288716	0.90[ASN][1000 genomes]
rs67169620	0.90[ASN][1000 genomes]
rs6833237	0.85[CEU][hapmap];0.91[EUR][1000 genomes]
rs6855282	0.91[EUR][1000 genomes]
rs7669462	0.86[CEU][hapmap];0.90[EUR][1000 genomes]
rs9685105	0.82[AFR][1000 genomes];0.94[EUR][1000 genomes]

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	nsv1012988	chr4:15597510-16091527	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv916742	chr4:15797994-16064232	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Genic enhancers Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:44 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:15940200-15983600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:15964600-16031000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr4:15965200-15983600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:15965600-15984000	Weak transcription	Colonic Mucosa	Colon
5	chr4:15967800-15983600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr4:15968000-16002600	Weak transcription	Left Ventricle	heart
7	chr4:15968600-15993600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr4:15968800-15983600	Weak transcription	Pancreas	Pancrea
9	chr4:15968800-15992600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr4:15969600-15990000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr4:15969600-16011600	Weak transcription	Fetal Lung	lung
12	chr4:15969800-15986200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr4:15971000-15983200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
14	chr4:15971000-15992200	Weak transcription	Fetal Brain Male	brain
15	chr4:15971000-16008000	Weak transcription	Aorta	Aorta
16	chr4:15973200-15993800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
17	chr4:15974000-15991800	Weak transcription	Fetal Intestine Small	intestine
18	chr4:15976400-15982000	Strong transcription	Rectal Mucosa Donor 29	rectum
19	chr4:15976400-15985800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr4:15976600-15984400	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr4:15976800-16002600	Weak transcription	Rectal Smooth Muscle	rectum
22	chr4:15977000-16007400	Weak transcription	Gastric	stomach
23	chr4:15977200-15981000	Strong transcription	Primary hematopoietic stem cells	blood
24	chr4:15977600-15982200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr4:15978000-15996800	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
26	chr4:15978200-15981800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
27	chr4:15978200-16003200	Weak transcription	Cortex derived primary cultured neurospheres	brain
28	chr4:15978600-15984200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
29	chr4:15978800-15983800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
30	chr4:15978800-15984200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
31	chr4:15978800-16002800	Weak transcription	Right Ventricle	heart
32	chr4:15979000-15981200	Strong transcription	Rectal Mucosa Donor 31	rectum
33	chr4:15979000-15981800	Strong transcription	HUES6 Cell Line	embryonic stem cell
34	chr4:15979400-16000400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
35	chr4:15979600-15982000	Strong transcription	HUES48 Cell Line	embryonic stem cell
36	chr4:15979600-15996600	Strong transcription	H1 Cell Line	embryonic stem cell
37	chr4:15979600-15998800	Weak transcription	Duodenum Mucosa	Duodenum
38	chr4:15980000-15982400	Strong transcription	HUES64 Cell Line	embryonic stem cell
39	chr4:15980400-15983200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr4:15980400-15983400	Weak transcription	H9 Cell Line	embryonic stem cell
41	chr4:15980400-15983600	Weak transcription	Fetal Muscle Leg	muscle
42	chr4:15980600-15982600	Weak transcription	Fetal Stomach	stomach
43	chr4:15980600-15983200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
44	chr4:15980800-15983200	Weak transcription	Fetal Muscle Trunk	muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links