Variant report

Variant	rs11817782
Chromosome Location	chr10:38301778-38301779
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:38298051..38301249-chr10:38301272..38302914,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000189180	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10827834	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs10827837	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs10827838	1.00[AFR][1000 genomes]
rs11011385	0.82[AFR][1000 genomes]
rs11011391	0.82[AFR][1000 genomes]
rs11011393	1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs11011403	0.94[AFR][1000 genomes]
rs11011412	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11011415	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11011417	1.00[ASW][hapmap];1.00[LWK][hapmap];0.94[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs11011428	1.00[AFR][1000 genomes]
rs11011430	0.94[AFR][1000 genomes]
rs11011437	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs11011438	0.94[AFR][1000 genomes]
rs11812927	0.94[AFR][1000 genomes]
rs11813723	0.94[AFR][1000 genomes]
rs11813932	1.00[AFR][1000 genomes]
rs11814622	0.94[AFR][1000 genomes]
rs11816307	0.94[AFR][1000 genomes]
rs11816860	1.00[AFR][1000 genomes]
rs11818933	0.94[AFR][1000 genomes]
rs12241614	1.00[AFR][1000 genomes]
rs12242343	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs12248857	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs12248947	1.00[CHB][hapmap]
rs12252754	0.88[AFR][1000 genomes]
rs12256794	0.82[AFR][1000 genomes]
rs12256916	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12257902	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12258024	1.00[YRI][hapmap]
rs12258128	0.82[AFR][1000 genomes]
rs12260189	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12260310	0.82[AFR][1000 genomes]
rs12262814	0.82[AFR][1000 genomes]
rs12266728	1.00[ASW][hapmap];1.00[LWK][hapmap];1.00[MKK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12267847	0.94[AFR][1000 genomes]
rs12269398	1.00[AFR][1000 genomes]
rs12770231	0.94[AFR][1000 genomes]
rs12773340	1.00[AFR][1000 genomes]
rs12777107	1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs12779056	1.00[YRI][hapmap];0.82[AFR][1000 genomes]
rs12784488	1.00[CHB][hapmap]
rs16937701	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs34445730	1.00[AFR][1000 genomes]
rs41314970	0.93[ASN][1000 genomes]
rs57753536	0.94[AFR][1000 genomes]
rs60538050	0.82[AFR][1000 genomes]
rs7086341	1.00[CHB][hapmap]
rs7095460	1.00[CHB][hapmap]
rs7100316	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs71491214	0.94[AFR][1000 genomes]
rs71491223	1.00[AFR][1000 genomes]
rs71491228	1.00[AFR][1000 genomes]
rs71491229	1.00[AFR][1000 genomes]
rs7901183	1.00[CHB][hapmap]
rs7917989	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9651365	1.00[YRI][hapmap];0.94[AFR][1000 genomes]

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	nsv895030	chr10:37715737-38674609	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045684	chr10:37765361-38426204	Weak transcription ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
3	nsv540564	chr10:37765361-38426204	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases
4	nsv1040704	chr10:37940024-38451917	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
5	nsv1051121	chr10:38155991-38426204	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
6	nsv540565	chr10:38155991-38426204	Strong transcription Weak transcription ZNF genes & repeats Enhancers Flanking Active TSS Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	26 gene(s)	inside rSNPs	diseases
7	nsv534122	chr10:38240258-38356008	ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
8	nsv540566	chr10:38301001-38680127	Weak transcription Strong transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:38300400-38304200	Weak transcription	Esophagus	oesophagus
2	chr10:38300400-38305200	Weak transcription	Lung	lung
3	chr10:38300400-38305800	Weak transcription	Ovary	ovary
4	chr10:38300400-38305800	Weak transcription	Spleen	Spleen
5	chr10:38300400-38306000	Weak transcription	Small Intestine	intestine
6	chr10:38300400-38319600	Weak transcription	Gastric	stomach
7	chr10:38300600-38302000	Flanking Active TSS	Dnd41	blood
8	chr10:38300600-38303600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr10:38300600-38304000	Weak transcription	Aorta	Aorta
10	chr10:38300600-38305200	Weak transcription	Left Ventricle	heart
11	chr10:38300600-38306000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr10:38300600-38306000	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr10:38300600-38318000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr10:38300600-38331600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:38300600-38336000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr10:38300600-38339400	Weak transcription	Psoas Muscle	Psoas
17	chr10:38300800-38301800	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr10:38300800-38301800	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr10:38300800-38302000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
20	chr10:38300800-38302200	Weak transcription	Fetal Muscle Trunk	muscle
21	chr10:38300800-38302400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
22	chr10:38300800-38302400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
23	chr10:38300800-38302600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr10:38300800-38302800	Weak transcription	H1 Cell Line	embryonic stem cell
25	chr10:38300800-38302800	Weak transcription	H9 Cell Line	embryonic stem cell
26	chr10:38300800-38303000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr10:38300800-38303200	Genic enhancers	Primary T cells fromperipheralblood	blood
28	chr10:38300800-38303400	Weak transcription	Muscle Satellite Cultured Cells	--
29	chr10:38300800-38303600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr10:38300800-38304200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr10:38300800-38304600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr10:38300800-38305600	Weak transcription	NHDF-Ad	bronchial
33	chr10:38300800-38306200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
34	chr10:38300800-38306600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
35	chr10:38300800-38307000	Weak transcription	Colonic Mucosa	Colon
36	chr10:38300800-38307200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr10:38300800-38307600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
38	chr10:38300800-38308600	Weak transcription	HSMM	muscle
39	chr10:38300800-38322000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr10:38300800-38339200	Weak transcription	HSMMtube	muscle
41	chr10:38301000-38301800	Weak transcription	HUES64 Cell Line	embryonic stem cell
42	chr10:38301000-38301800	Enhancers	Primary T cells from cord blood	blood
43	chr10:38301000-38301800	Enhancers	Primary T helper naive cells from peripheral blood	blood
44	chr10:38301000-38301800	Enhancers	Hela-S3	cervix
45	chr10:38301000-38302000	Enhancers	Fetal Brain Female	brain
46	chr10:38301000-38302200	Transcr. at gene 5' and 3'	Primary T helper cells PMA-I stimulated	--
47	chr10:38301000-38302400	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr10:38301000-38302600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr10:38301000-38302600	Weak transcription	Monocytes-CD14+_RO01746	blood
50	chr10:38301000-38302800	Weak transcription	Adipose Nuclei	Adipose

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