Variant report

Variant	rs11196905
Chromosome Location	chr10:116528294-116528295
allele	C/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:5)
LncRNA
region (count:1)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:5 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:116526447..116528712-chr10:116580718..116582885,3	MCF-7	breast:
2	chr10:116510537..116513350-chr10:116526093..116528633,2	MCF-7	breast:
3	chr10:116512788..116514605-chr10:116528016..116530958,2	MCF-7	breast:
4	chr10:116469822..116472730-chr10:116527178..116529089,2	MCF-7	breast:
5	chr10:116520053..116522860-chr10:116528096..116531529,3	K562	blood:

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

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-FAM160B1-4	chr10:116527700-116528317	ucscGeneNc_uc001lca_1

No data

Variant related genes	Relation type
ENSG00000151553	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10885596	1.00[CEU][hapmap];0.85[MEX][hapmap]
rs10885600	0.84[ASN][1000 genomes]
rs10885602	0.88[ASN][1000 genomes]
rs10885605	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10885608	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11196865	1.00[CEU][hapmap];0.82[CHB][hapmap];0.85[MEX][hapmap]
rs11196873	0.92[CEU][hapmap];0.85[MEX][hapmap]
rs11196876	1.00[CEU][hapmap]
rs11196877	1.00[CEU][hapmap]
rs11196898	0.92[ASN][1000 genomes]
rs11196903	0.82[ASN][1000 genomes]
rs11196904	0.83[CHB][hapmap];0.84[CHD][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs11196909	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11196912	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11196916	0.83[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs11196918	0.83[AMR][1000 genomes]
rs12573079	0.83[AMR][1000 genomes]
rs3926347	0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61869110	0.86[ASN][1000 genomes]
rs67774070	0.86[ASN][1000 genomes]
rs703349	0.82[ASN][1000 genomes]
rs7080397	0.82[ASN][1000 genomes]
rs7090491	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7908984	0.83[JPT][hapmap]
rs7912645	0.83[CHB][hapmap];0.83[CHD][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs808294	0.82[ASN][1000 genomes]
rs808295	0.82[ASN][1000 genomes]
rs808296	0.82[ASN][1000 genomes]
rs808298	0.82[ASN][1000 genomes]
rs808299	0.80[ASN][1000 genomes]
rs808302	0.92[ASN][1000 genomes]
rs808303	0.92[ASN][1000 genomes]
rs808346	0.83[CHB][hapmap];0.83[JPT][hapmap]
rs8181373	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
2	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
3	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	esv3435429	chr10:116394152-117006347	Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	esv1814163	chr10:116519705-116582581	Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
6	nsv516803	chr10:116528294-116556846	Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116525600-116528400	Active TSS	Right Atrium	heart
2	chr10:116526200-116528600	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:116526200-116528600	Active TSS	Right Ventricle	heart
4	chr10:116526600-116528400	Active TSS	Left Ventricle	heart
5	chr10:116526600-116528600	Bivalent/Poised TSS	HUES48 Cell Line	embryonic stem cell
6	chr10:116526600-116528800	Bivalent/Poised TSS	Fetal Brain Female	brain
7	chr10:116526800-116528400	Active TSS	Aorta	Aorta
8	chr10:116526800-116528400	Active TSS	Brain Angular Gyrus	brain
9	chr10:116526800-116528400	Active TSS	Brain Anterior Caudate	brain
10	chr10:116526800-116528600	Active TSS	Breast Myoepithelial Primary Cells	Breast
11	chr10:116526800-116528600	Active TSS	Rectal Smooth Muscle	rectum
12	chr10:116526800-116528800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
13	chr10:116527000-116528400	Active TSS	Ovary	ovary
14	chr10:116527000-116528600	Active TSS	H9 Cell Line	embryonic stem cell
15	chr10:116527000-116528600	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr10:116527000-116528600	Active TSS	Pancreatic Islets	Pancreatic Islet
17	chr10:116527200-116528400	Bivalent/Poised TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:116527200-116528400	Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
19	chr10:116527200-116528400	Active TSS	HSMMtube	muscle
20	chr10:116527200-116528400	Bivalent/Poised TSS	NHLF	lung
21	chr10:116527200-116528600	Active TSS	iPS-15b Cell Line	embryonic stem cell
22	chr10:116527200-116528600	Bivalent/Poised TSS	iPS-20b Cell Line	embryonic stem cell
23	chr10:116527200-116528600	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
24	chr10:116527200-116528600	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr10:116527200-116528800	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
26	chr10:116527400-116528400	Bivalent/Poised TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr10:116527400-116528400	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
28	chr10:116527400-116528400	Active TSS	Esophagus	oesophagus
29	chr10:116527400-116528400	Active TSS	Gastric	stomach
30	chr10:116527400-116528400	Active TSS	A549	lung
31	chr10:116527400-116528400	Active TSS	Hela-S3	cervix
32	chr10:116527400-116528600	Active TSS	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr10:116527400-116528600	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
34	chr10:116527400-116528600	Bivalent/Poised TSS	iPS-18 Cell Line	embryonic stem cell
35	chr10:116527400-116528600	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
36	chr10:116527400-116528600	Active TSS	Skeletal Muscle Male	skeletal muscle
37	chr10:116527600-116528400	Bivalent/Poised TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
38	chr10:116527600-116528400	Active TSS	Primary T helper naive cells fromperipheralblood	blood
39	chr10:116527600-116528400	Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr10:116527600-116528400	Bivalent/Poised TSS	Muscle Satellite Cultured Cells	--
41	chr10:116527600-116528400	Bivalent/Poised TSS	Brain Germinal Matrix	brain
42	chr10:116527600-116528400	Bivalent/Poised TSS	Colonic Mucosa	Colon
43	chr10:116527600-116528400	Active TSS	Duodenum Smooth Muscle	Duodenum
44	chr10:116527600-116528400	Weak transcription	Fetal Heart	heart
45	chr10:116527600-116528400	Active TSS	Fetal Lung	lung
46	chr10:116527600-116528400	Active TSS	Skeletal Muscle Female	skeletal muscle
47	chr10:116527600-116528400	Active TSS	HMEC	breast
48	chr10:116527600-116528400	Active TSS	HUVEC	blood vessel
49	chr10:116527600-116528400	Active TSS	NH-A	brain
50	chr10:116527600-116528400	Active TSS	NHEK	skin

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