Variant report

Variant	rs2298988
Chromosome Location	chr4:110890900-110890901
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10434002	0.88[CHB][hapmap];0.94[JPT][hapmap];0.93[ASN][1000 genomes]
rs11098058	0.83[CHB][hapmap]
rs11568853	1.00[CHB][hapmap];0.88[JPT][hapmap];0.94[ASN][1000 genomes]
rs11568862	0.96[ASN][1000 genomes]
rs11568886	0.97[ASN][1000 genomes]
rs11568901	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11568910	0.91[ASN][1000 genomes]
rs11568924	0.98[ASN][1000 genomes]
rs11568925	0.98[ASN][1000 genomes]
rs11568927	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11568941	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11568946	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11568975	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11568990	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11568991	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11569003	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs11569129	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs17040989	0.86[ASN][1000 genomes]
rs17040990	0.91[CHB][hapmap];0.84[ASN][1000 genomes]
rs17041036	1.00[CHB][hapmap];0.94[JPT][hapmap];0.96[ASN][1000 genomes]
rs17041134	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs1860131	1.00[CHB][hapmap];0.94[JPT][hapmap];0.94[ASN][1000 genomes]
rs2074389	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs2237043	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs2237046	0.93[ASN][1000 genomes]
rs2237047	0.88[CHB][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs2237048	0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2282782	0.95[ASN][1000 genomes]
rs2282783	0.96[ASN][1000 genomes]
rs2282786	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs2298980	0.96[ASN][1000 genomes]
rs2298984	0.98[ASN][1000 genomes]
rs2298987	1.00[ASN][1000 genomes]
rs2298994	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2298995	0.93[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2298997	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2298998	0.83[ASN][1000 genomes]
rs2302135	0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs3733628	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs3756264	0.94[CHB][hapmap];0.86[ASN][1000 genomes]
rs3796942	0.83[ASN][1000 genomes]
rs3796943	0.93[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs3796949	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs3822285	0.88[CHB][hapmap];0.82[JPT][hapmap]
rs4631111	0.94[ASN][1000 genomes]
rs59242631	0.92[ASN][1000 genomes]
rs887027	0.92[ASN][1000 genomes]
rs9307346	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530156	chr4:110721397-110911297	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:29 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110860600-110906600	Weak transcription	Psoas Muscle	Psoas
2	chr4:110875600-110909800	Weak transcription	Pancreas	Pancrea
3	chr4:110884200-110893600	Weak transcription	Fetal Heart	heart
4	chr4:110885800-110897200	Weak transcription	Skeletal Muscle Male	skeletal muscle
5	chr4:110885800-110909800	Weak transcription	Left Ventricle	heart
6	chr4:110888000-110891200	Strong transcription	Skeletal Muscle Female	skeletal muscle
7	chr4:110888200-110891000	Enhancers	HUVEC	blood vessel
8	chr4:110888200-110893800	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
9	chr4:110888800-110891200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr4:110889000-110891000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr4:110889000-110891600	Enhancers	Primary B cells from peripheral blood	blood
12	chr4:110889000-110891800	Enhancers	Primary hematopoietic stem cells	blood
13	chr4:110889000-110894000	Weak transcription	Duodenum Mucosa	Duodenum
14	chr4:110889400-110891000	Enhancers	Monocytes-CD14+_RO01746	blood
15	chr4:110889400-110891800	Enhancers	Primary monocytes fromperipheralblood	blood
16	chr4:110889600-110891000	Weak transcription	Placenta Amnion	Placenta Amnion
17	chr4:110890200-110891200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr4:110890200-110894200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr4:110890200-110894400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
20	chr4:110890400-110893600	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr4:110890400-110894200	Weak transcription	NHEK	skin
22	chr4:110890400-110900800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
23	chr4:110890600-110891000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
24	chr4:110890600-110891000	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr4:110890600-110893800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
26	chr4:110890800-110891200	Enhancers	Primary T cells from cord blood	blood
27	chr4:110890800-110891600	Enhancers	Fetal Kidney	kidney
28	chr4:110890800-110891800	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
29	chr4:110890800-110891800	Enhancers	HepG2	liver

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