Variant report

Variant	rs12358872
Chromosome Location	chr10:3854018-3854019
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:10)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:10 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:3851273..3854029-chr10:3860569..3863821,3	MCF-7	breast:
2	chr10:3847634..3849590-chr10:3852996..3855309,2	MCF-7	breast:
3	chr10:3850418..3854705-chr10:3877438..3880204,3	K562	blood:
4	chr10:3851780..3854214-chr10:3872954..3875359,2	MCF-7	breast:
5	chr10:3851635..3854134-chr10:3920122..3921856,2	K562	blood:
6	chr10:3852665..3856843-chr10:3893810..3896491,3	K562	blood:
7	chr10:3411041..3412863-chr10:3852722..3854873,2	MCF-7	breast:
8	chr10:3851797..3855219-chr10:3870977..3874184,3	MCF-7	breast:
9	chr10:3822110..3831216-chr10:3843525..3857606,41	MCF-7	breast:
10	chr10:3795979..3797716-chr10:3852548..3854370,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000067082	Chromatin interaction

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11252112	0.91[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11252114	1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs11252118	0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12358873	0.94[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[MEX][hapmap];0.90[TSI][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7918147	0.86[CHB][hapmap]

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	nsv1043680	chr10:3551191-4038002	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv540450	chr10:3804336-3859639	Genic enhancers Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
3	nsv540451	chr10:3804336-3868002	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
4	nsv540456	chr10:3820854-3868002	Weak transcription Active TSS Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	46 gene(s)	inside rSNPs	n/a
5	nsv1045571	chr10:3839308-3874184	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a
6	nsv540458	chr10:3839308-3874184	Flanking Active TSS Weak transcription Enhancers Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:3844800-3854600	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr10:3844800-3854600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr10:3845000-3854600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
4	chr10:3845000-3854600	Enhancers	Primary T cells from cord blood	blood
5	chr10:3845000-3854600	Enhancers	Fetal Thymus	thymus
6	chr10:3846800-3854600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr10:3847400-3854600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:3847400-3854600	Enhancers	Fetal Intestine Large	intestine
9	chr10:3847600-3854600	Enhancers	Fetal Intestine Small	intestine
10	chr10:3848000-3854600	Enhancers	Primary hematopoietic stem cells	blood
11	chr10:3848200-3855200	Enhancers	Placenta Amnion	Placenta Amnion
12	chr10:3848600-3854600	Enhancers	Stomach Mucosa	stomach
13	chr10:3849400-3854400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr10:3849600-3854600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:3850200-3854600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
16	chr10:3851200-3854600	Enhancers	Aorta	Aorta
17	chr10:3851400-3854400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
18	chr10:3851400-3856800	Enhancers	Fetal Heart	heart
19	chr10:3851600-3854600	Enhancers	Primary B cells from peripheral blood	blood
20	chr10:3851600-3854600	Enhancers	Placenta	Placenta
21	chr10:3851800-3854400	Flanking Active TSS	GM12878-XiMat	blood
22	chr10:3852200-3854200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:3852200-3854400	Enhancers	Fetal Lung	lung
24	chr10:3852800-3854200	Flanking Active TSS	Primary T helper naive cells from peripheral blood	blood
25	chr10:3852800-3854200	Enhancers	Fetal Stomach	stomach
26	chr10:3852800-3854400	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
27	chr10:3852800-3854400	Enhancers	Cortex derived primary cultured neurospheres	brain
28	chr10:3852800-3854600	Enhancers	Primary monocytes fromperipheralblood	blood
29	chr10:3852800-3854600	Flanking Active TSS	Dnd41	blood
30	chr10:3853000-3854200	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr10:3853000-3854600	Enhancers	Breast Myoepithelial Primary Cells	Breast
32	chr10:3853000-3854600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
33	chr10:3853200-3854400	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
34	chr10:3853200-3854400	Enhancers	Fetal Muscle Leg	muscle
35	chr10:3853200-3854600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
36	chr10:3853200-3854600	Enhancers	NHEK	skin
37	chr10:3853200-3854800	Enhancers	HMEC	breast
38	chr10:3853400-3854200	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
39	chr10:3853400-3854200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr10:3853400-3854200	Flanking Active TSS	Adipose Nuclei	Adipose
41	chr10:3853400-3854200	Enhancers	Brain Substantia Nigra	brain
42	chr10:3853400-3854200	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
43	chr10:3853400-3854200	Flanking Active TSS	Stomach Smooth Muscle	stomach
44	chr10:3853400-3854200	Flanking Active TSS	Osteobl	bone
45	chr10:3853400-3854400	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr10:3853400-3854400	Flanking Active TSS	Liver	Liver
47	chr10:3853400-3854400	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
48	chr10:3853400-3854400	Flanking Active TSS	Rectal Mucosa Donor 31	rectum
49	chr10:3853400-3854400	Enhancers	Sigmoid Colon	Sigmoid Colon
50	chr10:3853400-3854400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle

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