Variant report

Variant	rs12413470
Chromosome Location	chr10:28571517-28571518
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:28567822..28570184-chr10:28571377..28572911,2	MCF-7	breast:
2	chr10:28570371..28575406-chr10:28590076..28593528,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs16928644	1.00[CEU][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes]
rs58192820	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 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
5	nsv1040916	chr10:28558982-28579141	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
6	nsv466856	chr10:28562647-28571860	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv470929	chr10:28562647-28571860	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv550285	chr10:28562647-28571860	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv818752	chr10:28562647-28571860	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv437663	chr10:28562647-28585496	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
11	nsv1036270	chr10:28563995-28574327	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv1045247	chr10:28563995-28574624	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv1039546	chr10:28563995-28579141	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
14	esv2421445	chr10:28564207-28571860	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	esv3693051	chr10:28564732-28571860	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
16	nsv818753	chr10:28564732-28571860	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	nsv515548	chr10:28564732-28579969	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region miRNA	1 gene(s)	inside rSNPs	diseases
18	esv12765	chr10:28564737-28573369	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
19	nsv818754	chr10:28567807-28571860	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28550400-28582600	Weak transcription	Primary T cells fromperipheralblood	blood
2	chr10:28564000-28573200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr10:28564200-28573200	Weak transcription	Primary T cells from cord blood	blood
4	chr10:28564800-28572800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr10:28564800-28573000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
6	chr10:28566800-28573000	Weak transcription	Rectal Smooth Muscle	rectum
7	chr10:28568400-28573200	Weak transcription	Right Ventricle	heart
8	chr10:28569000-28571800	Enhancers	Stomach Smooth Muscle	stomach
9	chr10:28569000-28578400	Weak transcription	Monocytes-CD14+_RO01746	blood
10	chr10:28569400-28572400	Enhancers	Colon Smooth Muscle	Colon
11	chr10:28569600-28571800	Enhancers	Pancreas	Pancrea
12	chr10:28569600-28572000	Enhancers	Aorta	Aorta
13	chr10:28570400-28572200	Enhancers	Primary neutrophils fromperipheralblood	blood
14	chr10:28570400-28573200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
15	chr10:28570600-28571600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
16	chr10:28570600-28571600	Enhancers	HSMMtube	muscle
17	chr10:28570800-28571600	Enhancers	Primary B cells from cord blood	blood
18	chr10:28570800-28571600	Enhancers	Primary hematopoietic stem cells	blood
19	chr10:28570800-28571600	Enhancers	Esophagus	oesophagus
20	chr10:28570800-28571600	Enhancers	Fetal Muscle Leg	muscle
21	chr10:28570800-28571600	Enhancers	Left Ventricle	heart
22	chr10:28570800-28571600	Enhancers	HSMM	muscle
23	chr10:28570800-28571800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr10:28570800-28571800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
25	chr10:28570800-28571800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
26	chr10:28570800-28571800	Enhancers	Primary B cells from peripheral blood	blood
27	chr10:28570800-28571800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr10:28570800-28571800	Enhancers	Placenta Amnion	Placenta Amnion
29	chr10:28570800-28572400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr10:28571000-28571600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
31	chr10:28571000-28571600	Enhancers	Primary hematopoietic stem cells short term culture	blood
32	chr10:28571000-28571600	Enhancers	HepG2	liver
33	chr10:28571000-28571800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
34	chr10:28571000-28572000	Enhancers	Psoas Muscle	Psoas
35	chr10:28571000-28580200	Weak transcription	Lung	lung
36	chr10:28571200-28571600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
37	chr10:28571200-28571800	Enhancers	Fetal Intestine Large	intestine
38	chr10:28571200-28571800	Enhancers	Skeletal Muscle Male	skeletal muscle
39	chr10:28571200-28572400	Enhancers	Skeletal Muscle Female	skeletal muscle
40	chr10:28571400-28572000	Enhancers	HUES48 Cell Line	embryonic stem cell
41	chr10:28571400-28572000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr10:28571400-28573000	Weak transcription	Fetal Heart	heart
43	chr10:28571400-28573200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
44	chr10:28571400-28573200	Weak transcription	Primary T helper cells PMA-I stimulated	--
45	chr10:28571400-28573200	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr10:28571400-28573400	Weak transcription	Primary T helper cells fromperipheralblood	blood
47	chr10:28571400-28578200	Weak transcription	Primary monocytes fromperipheralblood	blood
48	chr10:28571400-28584600	Weak transcription	Fetal Intestine Small	intestine

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