Variant report

Variant	rs12359467
Chromosome Location	chr10:99094447-99094448
allele	C/G
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:8)
LncRNA
region (count:2)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:99049975..99053832-chr10:99093402..99096465,5	K562	blood:
2	chr10:99069668..99072343-chr10:99094033..99096294,2	MCF-7	breast:
3	chr10:99067399..99070806-chr10:99092978..99095924,3	K562	blood:
4	chr10:99050912..99053751-chr10:99091766..99095025,5	MCF-7	breast:
5	chr1:156720502..156721397-chr10:99094026..99094623,2	Hela-S3	cervix:
6	chr10:99094021..99094782-chrX:133930651..133931159,2	Hela-S3	cervix:
7	chr10:99048545..99053546-chr10:99092341..99096465,6	K562	blood:
8	chr10:99093772..99095545-chr12:121124812..121127214,2	MCF-7	breast:

(count:2 , 50 per page) page: 1

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FRAT1-1	chr10:99094321-99094728	ENSG00000225850.2
2	lnc-FRAT1-1	chr10:99094321-99094728	ENSG00000225850.1

No data

Variant related genes	Relation type
ENSG00000237169	Chromatin interaction
ENSG00000110917	Chromatin interaction
ENSG00000213390	Chromatin interaction
ENSG00000143321	Chromatin interaction
ENSG00000269891	Chromatin interaction
ENSG00000156500	Chromatin interaction

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

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

rs_ID	r²[population]
rs10509713	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189064	0.87[AMR][1000 genomes]
rs11189065	0.87[AMR][1000 genomes]
rs11189066	0.87[AMR][1000 genomes]
rs11189067	0.87[AMR][1000 genomes]
rs11189072	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189073	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189074	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189076	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189077	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189078	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189080	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189081	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189084	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189086	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11189087	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11189090	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189092	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189093	0.87[AMR][1000 genomes]
rs11189094	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189096	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189097	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189098	0.87[AMR][1000 genomes]
rs11189106	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189107	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189109	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11189117	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189118	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189125	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189129	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11189136	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11189140	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189141	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189143	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189145	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189146	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189148	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189149	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs11189158	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189162	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189166	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189170	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11189190	0.83[EUR][1000 genomes]
rs11189198	0.83[EUR][1000 genomes]
rs11189199	0.83[EUR][1000 genomes]
rs12355279	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12355311	1.00[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12355523	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12355526	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12356559	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12356626	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12356648	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12356909	1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12358104	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12358257	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12358267	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12358452	0.87[AMR][1000 genomes]
rs12358520	0.83[EUR][1000 genomes]
rs12358777	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12359143	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12359643	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12359654	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12360528	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1414742	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1810982	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1970191	0.93[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1970454	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs41284270	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs41300219	0.83[EUR][1000 genomes]
rs45527941	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7917149	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs884450	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9645543	0.87[AMR][1000 genomes]
rs9645559	0.87[AMR][1000 genomes]
rs9645560	0.87[AMR][1000 genomes]
rs9645561	0.87[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:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99090800-99095000	Active TSS	HUES64 Cell Line	embryonic stem cell
2	chr10:99091400-99095000	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
3	chr10:99091400-99095200	Active TSS	Brain Anterior Caudate	brain
4	chr10:99091400-99095400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:99091400-99095400	Active TSS	K562	blood
6	chr10:99091400-99095800	Active TSS	ES-I3 Cell Line	embryonic stem cell
7	chr10:99091400-99095800	Active TSS	HUES6 Cell Line	embryonic stem cell
8	chr10:99091600-99095400	Active TSS	H9 Cell Line	embryonic stem cell
9	chr10:99091800-99095000	Active TSS	Small Intestine	intestine
10	chr10:99091800-99095200	Active TSS	ES-WA7 Cell Line	embryonic stem cell
11	chr10:99092000-99095000	Active TSS	Colonic Mucosa	Colon
12	chr10:99092000-99095000	Active TSS	Esophagus	oesophagus
13	chr10:99092000-99095000	Active TSS	Fetal Intestine Large	intestine
14	chr10:99092000-99095000	Active TSS	Fetal Intestine Small	intestine
15	chr10:99092000-99095000	Active TSS	Rectal Mucosa Donor 29	rectum
16	chr10:99092000-99095000	Active TSS	Right Ventricle	heart
17	chr10:99092000-99095000	Active TSS	Stomach Mucosa	stomach
18	chr10:99092000-99095200	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
19	chr10:99092000-99095200	Active TSS	Liver	Liver
20	chr10:99092000-99095200	Active TSS	Colon Smooth Muscle	Colon
21	chr10:99092000-99095200	Active TSS	Duodenum Mucosa	Duodenum
22	chr10:99092000-99095200	Active TSS	Pancreatic Islets	Pancreatic Islet
23	chr10:99092000-99095200	Active TSS	Lung	lung
24	chr10:99092000-99095200	Active TSS	Ovary	ovary
25	chr10:99092000-99095200	Active TSS	Sigmoid Colon	Sigmoid Colon
26	chr10:99092000-99095400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr10:99092000-99095400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr10:99092000-99095400	Active TSS	Brain Angular Gyrus	brain
29	chr10:99092000-99095400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
30	chr10:99092000-99095400	Active TSS	Rectal Smooth Muscle	rectum
31	chr10:99092000-99095600	Active TSS	H1 Cell Line	embryonic stem cell
32	chr10:99092200-99095000	Active TSS	Primary monocytes fromperipheralblood	blood
33	chr10:99092200-99095000	Active TSS	Spleen	Spleen
34	chr10:99092200-99095000	Active TSS	Hela-S3	cervix
35	chr10:99092200-99095200	Active TSS	Gastric	stomach
36	chr10:99092200-99095200	Active TSS	Left Ventricle	heart
37	chr10:99092200-99095200	Active TSS	Pancreas	Pancrea
38	chr10:99092200-99095200	Active TSS	Psoas Muscle	Psoas
39	chr10:99092200-99095200	Active TSS	HSMMtube	muscle
40	chr10:99092200-99095200	Active TSS	NHDF-Ad	bronchial
41	chr10:99092200-99095400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
42	chr10:99092200-99095400	Active TSS	HUES48 Cell Line	embryonic stem cell
43	chr10:99092400-99094800	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
44	chr10:99092400-99095000	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
45	chr10:99092400-99095000	Active TSS	Rectal Mucosa Donor 31	rectum
46	chr10:99092400-99095200	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
47	chr10:99092600-99095000	Active TSS	Fetal Lung	lung
48	chr10:99092600-99095200	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
49	chr10:99092800-99095000	Active TSS	Placenta Amnion	Placenta Amnion
50	chr10:99093200-99094600	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung

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