Variant report

Variant	rs9501825
Chromosome Location	chr6:2316808-2316809
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10155673	1.00[MEX][hapmap]
rs11967121	0.80[YRI][hapmap];1.00[AMR][1000 genomes]
rs11968518	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1872597	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73340799	1.00[AMR][1000 genomes]
rs73340801	1.00[AMR][1000 genomes]
rs73342783	1.00[AMR][1000 genomes]
rs73344705	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73420770	1.00[AMR][1000 genomes]
rs73420780	1.00[AMR][1000 genomes]
rs9328085	1.00[AMR][1000 genomes]
rs9501829	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9503122	1.00[AMR][1000 genomes]
rs9503124	1.00[AMR][1000 genomes]
rs9503128	1.00[AMR][1000 genomes]
rs9503131	1.00[AMR][1000 genomes]
rs9503138	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9503139	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9503143	1.00[AMR][1000 genomes]
rs9503144	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9503145	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9503171	1.00[MEX][hapmap]
rs9885669	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9885981	0.98[AFR][1000 genomes];0.85[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530548	chr6:1441421-2351608	Weak transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv531295	chr6:1773436-2724986	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	71 gene(s)	inside rSNPs	diseases
3	nsv883388	chr6:2093432-2514911	Strong transcription Enhancers ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	62 gene(s)	inside rSNPs	diseases
4	nsv883389	chr6:2093432-2776303	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	87 gene(s)	inside rSNPs	diseases
5	nsv1022166	chr6:2199666-2320800	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
6	nsv1017174	chr6:2213893-2340529	Strong transcription Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	43 gene(s)	inside rSNPs	diseases
7	nsv1021573	chr6:2246721-2832408	Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	80 gene(s)	inside rSNPs	diseases
8	nsv538102	chr6:2246721-2832408	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	80 gene(s)	inside rSNPs	diseases
9	nsv883390	chr6:2265344-2584919	Weak transcription Enhancers Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
10	nsv883391	chr6:2282747-2507448	Flanking Active TSS Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:2275400-2319400	Weak transcription	Gastric	stomach
2	chr6:2298400-2320400	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr6:2299000-2319600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr6:2299200-2324200	Weak transcription	Aorta	Aorta
5	chr6:2308800-2319600	Weak transcription	Pancreas	Pancrea
6	chr6:2315200-2317000	Weak transcription	Fetal Intestine Small	intestine
7	chr6:2316800-2317000	ZNF genes & repeats	H9 Cell Line	embryonic stem cell
8	chr6:2316800-2317000	ZNF genes & repeats	Primary T helper naive cells fromperipheralblood	blood
9	chr6:2316800-2317000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
10	chr6:2316800-2317000	Weak transcription	Duodenum Smooth Muscle	Duodenum
11	chr6:2316800-2317200	Active TSS	Primary T helper naive cells from peripheral blood	blood
12	chr6:2316800-2317200	ZNF genes & repeats	Liver	Liver
13	chr6:2316800-2317200	Weak transcription	Fetal Lung	lung
14	chr6:2316800-2317200	ZNF genes & repeats	Left Ventricle	heart
15	chr6:2316800-2317200	ZNF genes & repeats	Rectal Smooth Muscle	rectum
16	chr6:2316800-2318000	ZNF genes & repeats	Fetal Stomach	stomach
17	chr6:2316800-2321600	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links