Variant report

Variant	rs11202862
Chromosome Location	chr10:90580238-90580239
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs11202857	1.00[AMR][1000 genomes]
rs11202904	1.00[CHB][hapmap];1.00[MEX][hapmap]
rs11817978	1.00[ASW][hapmap];0.92[MKK][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12246340	1.00[AMR][1000 genomes]
rs12255810	1.00[ASW][hapmap]
rs12256354	1.00[AMR][1000 genomes]
rs12259829	1.00[AMR][1000 genomes]
rs17333991	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap]
rs3218611	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap]
rs7912706	1.00[ASW][hapmap];0.85[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9988723	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv529324	chr10:90198865-90738588	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv831941	chr10:90410488-90587332	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
4	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
5	nsv1043015	chr10:90467067-90593692	Enhancers Weak transcription Bivalent Enhancer Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
6	nsv467415	chr10:90478483-90600865	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
7	nsv551840	chr10:90478483-90600865	Enhancers Weak transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
8	nsv831942	chr10:90564697-90730352	Flanking Active TSS Genic enhancers Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 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	chr10:90570600-90584200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
2	chr10:90573400-90583000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr10:90574200-90598400	Weak transcription	Gastric	stomach
4	chr10:90577200-90580600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr10:90578000-90580600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr10:90578000-90607200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr10:90578400-90582600	Weak transcription	Monocytes-CD14+_RO01746	blood
8	chr10:90578400-90591600	Weak transcription	Fetal Stomach	stomach
9	chr10:90578600-90592600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
10	chr10:90578600-90611200	Weak transcription	Esophagus	oesophagus
11	chr10:90578800-90581800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr10:90579200-90591600	Strong transcription	Primary neutrophils fromperipheralblood	blood
13	chr10:90579400-90580600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr10:90579400-90582000	Enhancers	Primary T cells from cord blood	blood
15	chr10:90579600-90580600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr10:90579600-90580600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr10:90579600-90580600	Weak transcription	NHLF	lung
18	chr10:90579800-90582000	Enhancers	Primary T helper cells PMA-I stimulated	--
19	chr10:90580000-90581000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
20	chr10:90580200-90580400	Enhancers	Primary T cells fromperipheralblood	blood
21	chr10:90580200-90581400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:90580200-90581400	Enhancers	Hela-S3	cervix
23	chr10:90580200-90581400	Enhancers	HMEC	breast
24	chr10:90580200-90581600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
25	chr10:90580200-90581600	Enhancers	Primary T helper naive cells from peripheral blood	blood
26	chr10:90580200-90581600	Enhancers	Primary T helper cells fromperipheralblood	blood
27	chr10:90580200-90581600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
28	chr10:90580200-90581600	Enhancers	NHEK	skin
29	chr10:90580200-90587600	Weak transcription	Small Intestine	intestine

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