Variant report

Variant	rs11006996
Chromosome Location	chr10:28585604-28585605
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:28563819..28566589-chr10:28585546..28588280,2	MCF-7	breast:
2	chr10:28580079..28588330-chr10:28588541..28593496,9	MCF-7	breast:
3	chr10:28580424..28583414-chr10:28585033..28588040,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs11006932	0.90[ASN][1000 genomes]
rs11006955	0.82[AMR][1000 genomes]
rs11007002	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12357385	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61845938	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61845939	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs61845943	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61845945	1.00[ASN][1000 genomes]
rs7090006	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv917149	chr10:28018919-28688694	Enhancers Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1041555	chr10:28419399-29304934	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
3	nsv1037863	chr10:28419399-29378871	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
4	nsv540521	chr10:28419399-29378871	Flanking Active TSS Enhancers Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:49 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28571800-28587800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr10:28573800-28587400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr10:28579000-28588400	Weak transcription	Primary monocytes fromperipheralblood	blood
4	chr10:28580000-28590400	Enhancers	Primary T helper cells PMA-I stimulated	--
5	chr10:28580600-28587800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
6	chr10:28580600-28591000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:28581200-28590200	Weak transcription	Fetal Heart	heart
8	chr10:28581800-28590600	Weak transcription	HMEC	breast
9	chr10:28582000-28586400	Enhancers	Primary T helper cells fromperipheralblood	blood
10	chr10:28582200-28590800	Enhancers	Primary T helper naive cells from peripheral blood	blood
11	chr10:28582400-28590600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr10:28582600-28586200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
13	chr10:28582600-28586400	Enhancers	Primary T cells from cord blood	blood
14	chr10:28583000-28585800	Enhancers	HUES48 Cell Line	embryonic stem cell
15	chr10:28583000-28586200	Enhancers	HepG2	liver
16	chr10:28583000-28589000	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr10:28583000-28590600	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr10:28583200-28586200	Enhancers	Colon Smooth Muscle	Colon
19	chr10:28583200-28590800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
20	chr10:28583600-28586200	Enhancers	Rectal Smooth Muscle	rectum
21	chr10:28584000-28588000	Weak transcription	Primary T cells fromperipheralblood	blood
22	chr10:28584200-28586000	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr10:28584200-28587600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr10:28584200-28589400	Weak transcription	Primary neutrophils fromperipheralblood	blood
25	chr10:28584400-28590600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
26	chr10:28584800-28591000	Weak transcription	Muscle Satellite Cultured Cells	--
27	chr10:28585000-28586200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
28	chr10:28585000-28590600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
29	chr10:28585200-28587600	Weak transcription	Duodenum Mucosa	Duodenum
30	chr10:28585200-28590200	Weak transcription	Duodenum Smooth Muscle	Duodenum
31	chr10:28585200-28590400	Weak transcription	Aorta	Aorta
32	chr10:28585400-28586000	Weak transcription	Gastric	stomach
33	chr10:28585400-28587800	Weak transcription	Small Intestine	intestine
34	chr10:28585400-28590400	Weak transcription	Skeletal Muscle Female	skeletal muscle
35	chr10:28585400-28590600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr10:28585400-28590600	Weak transcription	Psoas Muscle	Psoas
37	chr10:28585400-28590800	Weak transcription	Adipose Nuclei	Adipose
38	chr10:28585600-28586200	Enhancers	Stomach Smooth Muscle	stomach
39	chr10:28585600-28587600	Weak transcription	Skeletal Muscle Male	skeletal muscle
40	chr10:28585600-28590400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
41	chr10:28585600-28590400	Weak transcription	Fetal Intestine Large	intestine
42	chr10:28585600-28590400	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr10:28585600-28590600	Weak transcription	HUES6 Cell Line	embryonic stem cell
44	chr10:28585600-28590600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr10:28585600-28590600	Weak transcription	Fetal Intestine Small	intestine
46	chr10:28585600-28590600	Weak transcription	Stomach Mucosa	stomach
47	chr10:28585600-28590800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
48	chr10:28585600-28590800	Weak transcription	Fetal Stomach	stomach
49	chr10:28585600-28591000	Weak transcription	HSMMtube	muscle

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