Variant report

Variant	rs11896272
Chromosome Location	chr2:100286832-100286833
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs57726776	1.00[AMR][1000 genomes]
rs58947802	0.96[AFR][1000 genomes]
rs59404019	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60241940	1.00[AMR][1000 genomes]
rs60482936	1.00[AMR][1000 genomes]
rs6725598	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs6728654	1.00[AMR][1000 genomes]
rs72968221	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72968233	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7561590	1.00[AMR][1000 genomes]
rs7569609	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7578108	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7599020	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431424	chr2:99652682-100494682	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv962113	chr2:100022168-100317461	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv1003343	chr2:100241560-100848900	Weak transcription Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv535843	chr2:100241560-100848900	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:100253200-100308800	Weak transcription	Gastric	stomach
2	chr2:100257600-100308600	Weak transcription	Thymus	Thymus
3	chr2:100264000-100328600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
4	chr2:100268400-100287800	Strong transcription	Primary B cells from cord blood	blood
5	chr2:100269200-100288800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr2:100274200-100297400	Weak transcription	Liver	Liver
7	chr2:100275800-100291000	Weak transcription	Lung	lung
8	chr2:100276400-100302000	Weak transcription	Left Ventricle	heart
9	chr2:100276600-100295800	Weak transcription	Right Atrium	heart
10	chr2:100279400-100295000	Weak transcription	Fetal Brain Male	brain
11	chr2:100280600-100287200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr2:100280800-100287400	Weak transcription	Adipose Nuclei	Adipose
13	chr2:100282600-100308600	Weak transcription	Ovary	ovary
14	chr2:100282800-100291400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr2:100285200-100287800	Strong transcription	Primary B cells from peripheral blood	blood
16	chr2:100285800-100287000	Strong transcription	Dnd41	blood
17	chr2:100285800-100287800	Weak transcription	Monocytes-CD14+_RO01746	blood
18	chr2:100285800-100290800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr2:100286000-100294000	Weak transcription	Fetal Brain Female	brain
20	chr2:100286000-100297800	Weak transcription	Primary hematopoietic stem cells	blood
21	chr2:100286000-100301000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr2:100286000-100305600	Weak transcription	Fetal Thymus	thymus
23	chr2:100286400-100289400	Enhancers	Fetal Heart	heart
24	chr2:100286400-100289800	Enhancers	Fetal Lung	lung
25	chr2:100286600-100336800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
26	chr2:100286800-100288800	Weak transcription	Pancreas	Pancrea
27	chr2:100286800-100290200	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links