Variant report

Variant	rs10509713
Chromosome Location	chr10:99115709-99115710
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99093680..99095847-chr10:99114735..99116440,2	MCF-7	breast:
2	chr10:99115036..99117967-chr10:99132935..99135217,2	K562	blood:
3	chr10:99091407..99096076-chr10:99110583..99117776,8	MCF-7	breast:
4	chr10:99089670..99092667-chr10:99113757..99116464,3	MCF-7	breast:
5	chr10:99092017..99094354-chr10:99114011..99116551,2	K562	blood:
6	chr10:99113531..99116143-chr10:99121714..99124920,3	MCF-7	breast:
7	chr10:99114802..99116832-chr10:99128580..99131227,2	K562	blood:
8	chr10:99109959..99112928-chr10:99114627..99116420,2	K562	blood:
9	chr10:99037940..99038860-chr10:99115149..99115993,4	MCF-7	breast:
10	chr10:98993826..98994564-chr10:99114704..99115929,4	MCF-7	breast:
11	chr10:99115003..99117234-chr10:99118268..99120611,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000181274	Chromatin interaction
ENSG00000052749	Chromatin interaction
ENSG00000225850	Chromatin interaction

Extended variants
information (count: 83 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs11189064	0.93[AMR][1000 genomes]
rs11189065	0.93[AMR][1000 genomes]
rs11189066	0.93[AMR][1000 genomes]
rs11189067	0.93[AMR][1000 genomes]
rs11189072	0.93[AMR][1000 genomes]
rs11189073	0.93[AMR][1000 genomes]
rs11189074	0.93[AMR][1000 genomes]
rs11189076	0.93[AMR][1000 genomes]
rs11189077	0.93[AMR][1000 genomes]
rs11189078	0.93[AMR][1000 genomes]
rs11189080	0.93[AMR][1000 genomes]
rs11189081	0.93[AMR][1000 genomes]
rs11189084	0.93[AMR][1000 genomes]
rs11189086	0.93[AMR][1000 genomes]
rs11189087	0.93[AMR][1000 genomes]
rs11189090	0.88[AMR][1000 genomes]
rs11189092	0.88[AMR][1000 genomes]
rs11189093	0.93[AMR][1000 genomes]
rs11189094	0.93[AMR][1000 genomes]
rs11189096	0.93[AMR][1000 genomes]
rs11189097	0.93[AMR][1000 genomes]
rs11189098	0.93[AMR][1000 genomes]
rs11189106	0.93[AMR][1000 genomes]
rs11189107	0.93[AMR][1000 genomes]
rs11189109	0.88[AMR][1000 genomes]
rs11189117	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11189118	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11189125	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11189129	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs11189136	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11189140	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189141	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189143	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189145	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189146	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189148	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189149	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189158	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189162	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189166	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189170	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189190	0.96[EUR][1000 genomes]
rs11189198	0.96[EUR][1000 genomes]
rs11189199	0.96[EUR][1000 genomes]
rs12355279	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12355311	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12355523	0.93[AMR][1000 genomes]
rs12355526	0.93[AMR][1000 genomes]
rs12356559	0.93[AMR][1000 genomes]
rs12356626	0.93[AMR][1000 genomes]
rs12356648	0.93[AMR][1000 genomes]
rs12356909	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12358104	0.93[AMR][1000 genomes]
rs12358257	0.93[AMR][1000 genomes]
rs12358267	0.93[AMR][1000 genomes]
rs12358452	0.93[AMR][1000 genomes]
rs12358520	0.96[EUR][1000 genomes]
rs12358777	0.93[AMR][1000 genomes]
rs12359143	0.93[AMR][1000 genomes]
rs12359467	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs12359643	0.93[AMR][1000 genomes]
rs12359654	0.93[AMR][1000 genomes]
rs12360528	0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1414742	0.93[AMR][1000 genomes]
rs1810982	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1970191	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1970454	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41284270	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs41300219	0.96[EUR][1000 genomes]
rs45527941	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7917149	0.88[AMR][1000 genomes]
rs884450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9645543	0.93[AMR][1000 genomes]
rs9645559	0.93[AMR][1000 genomes]
rs9645560	0.93[AMR][1000 genomes]
rs9645561	0.93[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532232	chr10:98360775-99141797	Enhancers Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1045553	chr10:98944397-99122203	Strong transcription Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
3	nsv540750	chr10:98944397-99122203	Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Weak transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv831952	chr10:98998344-99145924	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
5	nsv895914	chr10:99006083-99131676	Active TSS Flanking Active TSS Enhancers Weak transcription Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
6	nsv467437	chr10:99115683-99167436	Flanking Active TSS Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Genic enhancers Enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
7	nsv552023	chr10:99115683-99167436	Strong transcription Active TSS Weak transcription Genic enhancers Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:118 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99097400-99116000	Weak transcription	Hela-S3	cervix
2	chr10:99097600-99115800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:99098200-99116200	Weak transcription	Brain Angular Gyrus	brain
4	chr10:99103000-99116000	Weak transcription	Brain Germinal Matrix	brain
5	chr10:99106800-99116400	Weak transcription	Aorta	Aorta
6	chr10:99107000-99131800	Weak transcription	Fetal Kidney	kidney
7	chr10:99107200-99116000	Weak transcription	Sigmoid Colon	Sigmoid Colon
8	chr10:99107200-99129200	Weak transcription	Pancreatic Islets	Pancreatic Islet
9	chr10:99107400-99116000	Weak transcription	Primary T cells from cord blood	blood
10	chr10:99107600-99116000	Weak transcription	Fetal Thymus	thymus
11	chr10:99107800-99117600	Weak transcription	Fetal Lung	lung
12	chr10:99108200-99116000	Weak transcription	Esophagus	oesophagus
13	chr10:99108400-99115800	Weak transcription	Primary T cells fromperipheralblood	blood
14	chr10:99109000-99157800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
15	chr10:99109400-99118400	Weak transcription	HMEC	breast
16	chr10:99109400-99120400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr10:99109600-99116000	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr10:99109600-99120600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr10:99109600-99157800	Strong transcription	Fetal Stomach	stomach
20	chr10:99109800-99115800	Weak transcription	Colon Smooth Muscle	Colon
21	chr10:99109800-99116000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
22	chr10:99109800-99116400	Weak transcription	Small Intestine	intestine
23	chr10:99109800-99118400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
24	chr10:99109800-99118400	Weak transcription	Rectal Smooth Muscle	rectum
25	chr10:99110200-99118600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
26	chr10:99110400-99118400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr10:99110600-99115800	Weak transcription	Rectal Mucosa Donor 31	rectum
28	chr10:99110600-99132800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr10:99110800-99139800	Weak transcription	Stomach Mucosa	stomach
30	chr10:99111200-99121600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
31	chr10:99111600-99115800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr10:99111600-99141800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr10:99112200-99115800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr10:99112200-99116200	Weak transcription	HSMM	muscle
35	chr10:99113000-99116000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
36	chr10:99113200-99115800	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
37	chr10:99113200-99135400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr10:99113400-99158600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr10:99113800-99116600	Weak transcription	Thymus	Thymus
40	chr10:99113800-99138800	Strong transcription	Fetal Intestine Small	intestine
41	chr10:99113800-99158800	Strong transcription	HUES64 Cell Line	embryonic stem cell
42	chr10:99113800-99159800	Weak transcription	Fetal Brain Male	brain
43	chr10:99114000-99115800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr10:99114000-99118200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr10:99114200-99116000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr10:99114200-99116200	Weak transcription	NHDF-Ad	bronchial
47	chr10:99114400-99135000	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
48	chr10:99114600-99117400	Strong transcription	Osteobl	bone
49	chr10:99114600-99159000	Strong transcription	iPS-20b Cell Line	embryonic stem cell
50	chr10:99114800-99117200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood

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