Variant report

Variant	rs17073995
Chromosome Location	chr6:144958810-144958811
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10499232	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11155364	1.00[CHB][hapmap];0.81[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs11155365	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs11155370	0.86[CHB][hapmap];0.86[CHD][hapmap];0.80[GIH][hapmap];0.82[JPT][hapmap];0.81[ASN][1000 genomes]
rs12209027	1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.93[ASN][1000 genomes]
rs12662483	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12662875	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17073972	1.00[CEU][hapmap];0.83[CHB][hapmap];0.81[JPT][hapmap]
rs17074004	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs1918751	0.85[GIH][hapmap];1.00[MEX][hapmap]
rs1918752	0.85[GIH][hapmap];0.86[MEX][hapmap]
rs1980379	0.91[CHB][hapmap];0.87[JPT][hapmap];0.84[ASN][1000 genomes]
rs2056744	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2056745	0.82[GIH][hapmap]
rs2293536	0.85[GIH][hapmap];1.00[MEX][hapmap]
rs3950347	0.97[ASN][1000 genomes]
rs4895646	1.00[CHB][hapmap];0.81[CHD][hapmap];0.86[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs4896728	1.00[CEU][hapmap];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9373415	0.85[GIH][hapmap];1.00[MEX][hapmap]
rs9373419	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[JPT][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9373420	0.82[ASN][1000 genomes]
rs9376824	0.85[GIH][hapmap];0.86[MEX][hapmap]
rs9376826	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9376828	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9376835	1.00[CEU][hapmap];0.91[CHB][hapmap];0.84[CHD][hapmap];0.89[GIH][hapmap];0.83[JPT][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9376837	0.86[CHB][hapmap];0.84[CHD][hapmap];0.83[JPT][hapmap];0.81[ASN][1000 genomes]
rs9386075	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9386076	0.80[GIH][hapmap]
rs9390170	1.00[MEX][hapmap]
rs9390174	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9390175	1.00[CEU][hapmap];0.84[GIH][hapmap];1.00[MEX][hapmap];0.86[EUR][1000 genomes]
rs9390176	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9390178	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9390184	1.00[CHB][hapmap];0.91[CHD][hapmap];0.82[GIH][hapmap];0.91[JPT][hapmap];0.94[ASN][1000 genomes]
rs9390187	0.91[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs9390188	0.80[ASN][1000 genomes]
rs9399483	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs9399485	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9399486	0.91[CHB][hapmap];0.84[CHD][hapmap];0.80[GIH][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs9403563	1.00[MEX][hapmap]
rs9403564	1.00[MEX][hapmap]
rs9403567	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs9403572	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1015228	chr6:144780458-144989321	Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv538462	chr6:144780458-144989321	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv1016747	chr6:144917411-145599874	Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17073995	FGL2	trans	brain	seeQTL

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:144914800-144960000	Weak transcription	Lung	lung
2	chr6:144930600-144973000	Weak transcription	Primary T helper cells PMA-I stimulated	--
3	chr6:144939000-144959200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
4	chr6:144946000-144961000	Weak transcription	Left Ventricle	heart
5	chr6:144946000-144965800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr6:144947000-144964800	Weak transcription	HUES48 Cell Line	embryonic stem cell
7	chr6:144947000-144969200	Weak transcription	Fetal Kidney	kidney
8	chr6:144948400-144973600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr6:144949000-144965200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr6:144949200-144980200	Weak transcription	Fetal Thymus	thymus
11	chr6:144950200-144973600	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr6:144951000-144974800	Weak transcription	Primary B cells from cord blood	blood
13	chr6:144951200-144974800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr6:144951600-144975000	Weak transcription	Primary T cells from cord blood	blood
15	chr6:144951800-144977600	Weak transcription	Dnd41	blood
16	chr6:144952400-144959000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
17	chr6:144952600-144974600	Weak transcription	Primary B cells from peripheral blood	blood
18	chr6:144953000-144960200	Weak transcription	Fetal Heart	heart
19	chr6:144955400-144961000	Weak transcription	Fetal Lung	lung
20	chr6:144955600-144961000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr6:144956600-144965000	Weak transcription	HepG2	liver
22	chr6:144957000-144966600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
23	chr6:144957800-144959400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
24	chr6:144958000-144961200	Enhancers	Primary monocytes fromperipheralblood	blood
25	chr6:144958200-144959000	Enhancers	H9 Cell Line	embryonic stem cell
26	chr6:144958200-144959000	Enhancers	Esophagus	oesophagus
27	chr6:144958200-144959200	Enhancers	Liver	Liver
28	chr6:144958200-144959600	Enhancers	Primary neutrophils fromperipheralblood	blood
29	chr6:144958400-144962400	Weak transcription	Ovary	ovary
30	chr6:144958400-144964800	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr6:144958600-144959000	Enhancers	NHEK	skin
32	chr6:144958600-144959200	Enhancers	Adipose Nuclei	Adipose
33	chr6:144958800-144959600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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