Variant report

Variant	rs11729242
Chromosome Location	chr4:166223992-166223993
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs11722307	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11723812	1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];0.81[LWK][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11725104	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11725167	1.00[JPT][hapmap]
rs11726821	0.93[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs11730816	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11733838	0.87[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs17009130	1.00[CEU][hapmap];1.00[CHB][hapmap];0.85[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[LWK][hapmap];0.93[MKK][hapmap]
rs34274617	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35068327	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4129766	0.86[EUR][1000 genomes]
rs55951309	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56208210	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56229427	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56919208	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57645545	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs57715828	0.86[AFR][1000 genomes]
rs59089770	0.93[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs59263314	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs59639455	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs60197231	0.93[AMR][1000 genomes]
rs60459687	0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs61149197	0.83[ASN][1000 genomes]
rs72993975	0.83[ASN][1000 genomes]
rs72995922	0.82[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72995990	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72995992	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72995999	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997704	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72997706	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73860621	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73860622	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs73860630	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73875268	0.83[ASN][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	nsv1022210	chr4:165792630-166251612	Genic enhancers Enhancers Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv537337	chr4:165792630-166251612	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:99 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166198200-166230000	Weak transcription	Fetal Muscle Leg	muscle
2	chr4:166210400-166229000	Weak transcription	HMEC	breast
3	chr4:166214400-166246600	Weak transcription	Placenta	Placenta
4	chr4:166216000-166236800	Weak transcription	Colonic Mucosa	Colon
5	chr4:166216200-166230000	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr4:166216400-166231600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr4:166216400-166240200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
8	chr4:166218000-166232200	Weak transcription	Fetal Heart	heart
9	chr4:166219200-166225000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
10	chr4:166219200-166229000	Weak transcription	NHEK	skin
11	chr4:166219200-166240400	Weak transcription	Sigmoid Colon	Sigmoid Colon
12	chr4:166219400-166230000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr4:166219400-166230600	Weak transcription	Fetal Brain Female	brain
14	chr4:166219400-166246600	Weak transcription	HUES6 Cell Line	embryonic stem cell
15	chr4:166219400-166246600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr4:166219600-166230400	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr4:166219600-166230400	Weak transcription	Brain Germinal Matrix	brain
18	chr4:166219600-166233800	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr4:166219600-166246800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr4:166220000-166229600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
21	chr4:166220000-166231600	Weak transcription	Lung	lung
22	chr4:166220000-166232400	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr4:166220000-166232600	Weak transcription	Left Ventricle	heart
24	chr4:166220000-166246600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
25	chr4:166220000-166247000	Weak transcription	Spleen	Spleen
26	chr4:166220000-166247400	Weak transcription	Fetal Stomach	stomach
27	chr4:166220000-166247800	Weak transcription	Right Ventricle	heart
28	chr4:166220200-166229800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr4:166220400-166226000	Weak transcription	Primary B cells from peripheral blood	blood
30	chr4:166220800-166230200	Weak transcription	Fetal Intestine Small	intestine
31	chr4:166221000-166229600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
32	chr4:166221000-166231600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr4:166221200-166232200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
34	chr4:166221200-166235200	Weak transcription	Fetal Intestine Large	intestine
35	chr4:166221600-166224200	Enhancers	Primary neutrophils fromperipheralblood	blood
36	chr4:166221600-166228600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr4:166221800-166225800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr4:166221800-166231600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
39	chr4:166222800-166224400	Flanking Active TSS	Liver	Liver
40	chr4:166223400-166224200	Enhancers	Brain Cingulate Gyrus	brain
41	chr4:166223400-166224400	Enhancers	Osteobl	bone
42	chr4:166223400-166226200	Weak transcription	Primary monocytes fromperipheralblood	blood
43	chr4:166223400-166226400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr4:166223400-166226800	Weak transcription	Primary T cells fromperipheralblood	blood
45	chr4:166223400-166229600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
46	chr4:166223400-166230000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr4:166223400-166230000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
48	chr4:166223400-166231800	Weak transcription	NH-A	brain
49	chr4:166223400-166232600	Weak transcription	Pancreas	Pancrea
50	chr4:166223400-166232600	Weak transcription	HepG2	liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links