Variant report

Variant	rs12355279
Chromosome Location	chr10:99110836-99110837
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:99109959..99112928-chr10:99114627..99116420,2	K562	blood:
2	chr10:99091407..99096076-chr10:99110583..99117776,8	MCF-7	breast:
3	chr10:99095023..99098677-chr10:99109833..99114591,4	MCF-7	breast:
4	chr10:99091031..99094370-chr10:99110745..99113194,3	MCF-7	breast:
5	chr10:99110356..99112146-chr10:99158578..99161292,2	K562	blood:

Variant related genes	Relation type
ENSG00000231970	Chromatin interaction
ENSG00000225850	Chromatin interaction
ENSG00000181274	Chromatin interaction
ENSG00000052749	Chromatin interaction

Extended variants
information (count: 88 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:81)

rs_ID	r²[population]
rs10509713	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189041	1.00[CEU][hapmap]
rs11189055	1.00[CEU][hapmap]
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	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs11189074	0.93[AMR][1000 genomes]
rs11189076	0.93[AMR][1000 genomes]
rs11189077	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs11189078	0.93[AMR][1000 genomes]
rs11189080	1.00[CEU][hapmap];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	1.00[CEU][hapmap];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	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs11189107	0.93[AMR][1000 genomes]
rs11189109	0.88[AMR][1000 genomes]
rs11189117	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11189118	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11189125	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11189129	0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11189136	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189140	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189141	1.00[CEU][hapmap];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189143	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189145	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189146	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189148	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189149	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11189158	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189162	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189166	1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189170	1.00[CEU][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs11189190	0.87[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs11189198	0.92[EUR][1000 genomes]
rs11189199	0.92[EUR][1000 genomes]
rs11189219	1.00[CEU][hapmap]
rs11189220	1.00[CEU][hapmap]
rs12355311	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12355523	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs12355526	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs12356559	0.93[AMR][1000 genomes]
rs12356626	0.93[AMR][1000 genomes]
rs12356648	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs12356802	1.00[CEU][hapmap]
rs12356909	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[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	0.92[EUR][1000 genomes]
rs12358777	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs12359143	0.93[AMR][1000 genomes]
rs12359467	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12359643	1.00[CEU][hapmap];0.93[AMR][1000 genomes]
rs12359654	0.93[AMR][1000 genomes]
rs12360528	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1414742	0.93[AMR][1000 genomes]
rs1810982	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1970191	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1970454	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41284270	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs41300219	0.92[EUR][1000 genomes]
rs45527941	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7917149	1.00[CEU][hapmap];0.88[AMR][1000 genomes]
rs884450	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9645543	0.93[AMR][1000 genomes]
rs9645559	0.93[AMR][1000 genomes]
rs9645560	0.93[AMR][1000 genomes]
rs9645561	1.00[CEU][hapmap];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	nsv825533	chr10:99070570-99115599	Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Active TSS Enhancers Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
7	nsv825534	chr10:99081505-99115599	Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:102 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99095200-99115200	Weak transcription	Gastric	stomach
2	chr10:99095400-99115600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr10:99095400-99115600	Weak transcription	Left Ventricle	heart
4	chr10:99095400-99115600	Weak transcription	Right Ventricle	heart
5	chr10:99097400-99115200	Weak transcription	A549	lung
6	chr10:99097400-99116000	Weak transcription	Hela-S3	cervix
7	chr10:99097600-99115200	Weak transcription	NHEK	skin
8	chr10:99097600-99115800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:99098200-99116200	Weak transcription	Brain Angular Gyrus	brain
10	chr10:99098400-99115200	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr10:99098600-99114600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
12	chr10:99098600-99115400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:99099400-99113600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr10:99099400-99115600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr10:99101800-99114400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr10:99102400-99115400	Weak transcription	Pancreas	Pancrea
17	chr10:99103000-99116000	Weak transcription	Brain Germinal Matrix	brain
18	chr10:99105600-99113800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr10:99106400-99111600	Weak transcription	HUES64 Cell Line	embryonic stem cell
20	chr10:99106600-99113400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
21	chr10:99106800-99116400	Weak transcription	Aorta	Aorta
22	chr10:99107000-99115400	Weak transcription	Muscle Satellite Cultured Cells	--
23	chr10:99107000-99131800	Weak transcription	Fetal Kidney	kidney
24	chr10:99107200-99115200	Weak transcription	Psoas Muscle	Psoas
25	chr10:99107200-99115400	Weak transcription	Primary B cells from peripheral blood	blood
26	chr10:99107200-99115600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr10:99107200-99116000	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr10:99107200-99129200	Weak transcription	Pancreatic Islets	Pancreatic Islet
29	chr10:99107400-99116000	Weak transcription	Primary T cells from cord blood	blood
30	chr10:99107600-99115200	Weak transcription	Dnd41	blood
31	chr10:99107600-99116000	Weak transcription	Fetal Thymus	thymus
32	chr10:99107800-99114600	Weak transcription	Osteobl	bone
33	chr10:99107800-99117600	Weak transcription	Fetal Lung	lung
34	chr10:99108200-99111200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
35	chr10:99108200-99115200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
36	chr10:99108200-99115400	Weak transcription	HepG2	liver
37	chr10:99108200-99116000	Weak transcription	Esophagus	oesophagus
38	chr10:99108400-99111200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr10:99108400-99115200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
40	chr10:99108400-99115800	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr10:99108600-99115200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr10:99108600-99115200	Weak transcription	Fetal Brain Female	brain
43	chr10:99109000-99115600	Weak transcription	Cortex derived primary cultured neurospheres	brain
44	chr10:99109000-99157800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr10:99109200-99111200	Genic enhancers	Primary neutrophils fromperipheralblood	blood
46	chr10:99109200-99111200	Enhancers	Fetal Intestine Small	intestine
47	chr10:99109200-99112000	Strong transcription	Fetal Muscle Leg	muscle
48	chr10:99109200-99112200	Strong transcription	Monocytes-CD14+_RO01746	blood
49	chr10:99109200-99113000	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr10:99109200-99115200	Weak transcription	Brain Hippocampus Middle	brain

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