Variant report

Variant	rs3173798
Chromosome Location	chr7:80285850-80285851
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10428893	0.98[EUR][1000 genomes]
rs10429164	0.98[EUR][1000 genomes]
rs10499857	0.81[CEU][hapmap];0.91[EUR][1000 genomes]
rs10499858	0.82[TSI][hapmap];0.91[EUR][1000 genomes]
rs10669209	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs11768747	0.91[EUR][1000 genomes]
rs11768817	0.91[EUR][1000 genomes]
rs11771839	0.81[CEU][hapmap];0.91[EUR][1000 genomes]
rs11772036	0.91[EUR][1000 genomes]
rs1194181	0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs11971740	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs11971793	1.00[EUR][1000 genomes]
rs11972894	1.00[EUR][1000 genomes]
rs11974227	0.91[EUR][1000 genomes]
rs12113010	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1334511	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1360741	0.84[CEU][hapmap]
rs1534314	1.00[CEU][hapmap];0.85[YRI][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1537593	0.84[CEU][hapmap];0.86[CHB][hapmap];0.95[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];0.92[ASN][1000 genomes]
rs17154130	0.91[EUR][1000 genomes]
rs17154181	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs1924	0.87[ASW][hapmap];0.84[CEU][hapmap];0.86[LWK][hapmap];0.91[TSI][hapmap];0.82[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs3173799	1.00[CEU][hapmap];0.94[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3211817	1.00[CEU][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs3211828	1.00[ASW][hapmap];1.00[CEU][hapmap];0.86[LWK][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3211830	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3211838	0.99[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3211851	1.00[CEU][hapmap];1.00[YRI][hapmap];0.99[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs3211867	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs3211868	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3211869	1.00[ASW][hapmap];1.00[CEU][hapmap];0.97[LWK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3211875	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs3211883	0.81[CEU][hapmap];0.81[CHB][hapmap]
rs3212162	0.94[AFR][1000 genomes];0.95[EUR][1000 genomes]
rs3212163	1.00[EUR][1000 genomes]
rs35179913	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs41364549	1.00[CEU][hapmap];1.00[TSI][hapmap]
rs4410854	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs58408258	1.00[EUR][1000 genomes]
rs60133848	1.00[EUR][1000 genomes]
rs60854150	0.98[EUR][1000 genomes]
rs6960369	1.00[EUR][1000 genomes]
rs9641866	0.87[ASW][hapmap];1.00[CEU][hapmap];0.82[GIH][hapmap];1.00[TSI][hapmap];1.00[EUR][1000 genomes]
rs9784998	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.81[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9918530	1.00[EUR][1000 genomes]
rs9918586	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv888524	chr7:80107798-80723062	Active TSS Strong transcription Enhancers Genic enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv831043	chr7:80119414-80322092	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
3	nsv948605	chr7:80119690-80298887	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv1020682	chr7:80120651-80297697	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv464606	chr7:80177084-80311794	Active TSS Flanking Active TSS Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv607682	chr7:80177084-80311794	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv1026688	chr7:80231657-80307236	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
8	nsv1020745	chr7:80231657-80309495	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
9	nsv888526	chr7:80240943-80354229	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
10	nsv888529	chr7:80252518-80295701	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
11	nsv464607	chr7:80262830-80288854	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv607683	chr7:80262830-80288854	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	nsv888533	chr7:80272568-80289765	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	nsv888535	chr7:80277632-80303350	Genic enhancers Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:80269400-80305000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr7:80272600-80293600	Weak transcription	Placenta	Placenta
3	chr7:80275800-80288400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr7:80276200-80286400	Strong transcription	Monocytes-CD14+_RO01746	blood
5	chr7:80278600-80288200	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr7:80279000-80306600	Weak transcription	Fetal Intestine Small	intestine
7	chr7:80279800-80303400	Weak transcription	Duodenum Mucosa	Duodenum
8	chr7:80281200-80287200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr7:80282200-80291800	Weak transcription	Fetal Muscle Leg	muscle
10	chr7:80282800-80291000	Weak transcription	Fetal Muscle Trunk	muscle
11	chr7:80283200-80292600	Genic enhancers	Adipose Nuclei	Adipose
12	chr7:80284000-80286000	Enhancers	HepG2	liver
13	chr7:80284600-80288200	Weak transcription	Fetal Heart	heart
14	chr7:80284600-80288400	Weak transcription	Fetal Lung	lung
15	chr7:80284600-80291600	Weak transcription	Spleen	Spleen
16	chr7:80284600-80309800	Weak transcription	Psoas Muscle	Psoas
17	chr7:80285000-80287800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr7:80285000-80288400	Weak transcription	Pancreatic Islets	Pancreatic Islet
19	chr7:80285200-80287600	Weak transcription	Right Atrium	heart
20	chr7:80285200-80291200	Weak transcription	Left Ventricle	heart
21	chr7:80285400-80288800	Genic enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr7:80285600-80288800	Genic enhancers	Primary monocytes fromperipheralblood	blood
23	chr7:80285800-80287200	Strong transcription	Skeletal Muscle Female	skeletal muscle
24	chr7:80285800-80291600	Weak transcription	Right Ventricle	heart
25	chr7:80285800-80308200	Weak transcription	Liver	Liver

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links