Variant report

Variant	rs12572302
Chromosome Location	chr10:27436666-27436667
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	chr10:27436463..27438125-chr10:27529965..27532722,2	MCF-7	breast:
2	chr10:27433200..27434750-chr10:27436541..27439491,2	K562	blood:

Variant related genes	Relation type
ENSG00000262412	Chromatin interaction
ENSG00000107897	Chromatin interaction

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:36)

rs_ID	r²[population]
rs11015447	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs11015449	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs11015546	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12411984	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12414273	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12415376	1.00[AFR][1000 genomes]
rs12415390	0.84[CHB][hapmap];0.88[JPT][hapmap]
rs12416077	1.00[CHB][hapmap];0.93[JPT][hapmap]
rs12416080	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs12569491	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12569598	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12570065	1.00[CHB][hapmap];0.91[CHD][hapmap];0.92[GIH][hapmap];0.94[JPT][hapmap]
rs12570662	0.88[JPT][hapmap];1.00[AFR][1000 genomes]
rs12571529	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12572325	0.82[JPT][hapmap];1.00[AFR][1000 genomes]
rs12572707	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[GIH][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs12572862	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes]
rs12573268	0.82[ASN][1000 genomes]
rs1329993	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2297144	1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs28365962	0.98[ASN][1000 genomes]
rs3758404	0.95[ASN][1000 genomes]
rs3780924	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs3780925	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3781101	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3781102	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3802526	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs3818633	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs3824592	0.98[ASN][1000 genomes]
rs3824690	1.00[AFR][1000 genomes]
rs4747586	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4749222	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4749227	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4749229	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4749234	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73598035	0.98[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2422253	chr10:27431366-27575370	Strong transcription Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27389800-27441200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:27390000-27442000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:27393800-27438600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr10:27395400-27437800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr10:27396200-27440600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
6	chr10:27397600-27438600	Strong transcription	Fetal Thymus	thymus
7	chr10:27398800-27438200	Strong transcription	Primary T helper cells fromperipheralblood	blood
8	chr10:27398800-27438200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
9	chr10:27399600-27438400	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr10:27399800-27438600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
11	chr10:27400400-27438400	Strong transcription	Liver	Liver
12	chr10:27412400-27440200	Weak transcription	Fetal Heart	heart
13	chr10:27419200-27438600	Strong transcription	Monocytes-CD14+_RO01746	blood
14	chr10:27419200-27438800	Strong transcription	Primary monocytes fromperipheralblood	blood
15	chr10:27419400-27441400	Weak transcription	Stomach Mucosa	stomach
16	chr10:27427000-27438600	Strong transcription	HUES6 Cell Line	embryonic stem cell
17	chr10:27427200-27438000	Strong transcription	Breast Myoepithelial Primary Cells	Breast
18	chr10:27427200-27438400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
19	chr10:27427600-27438000	Strong transcription	Rectal Mucosa Donor 29	rectum
20	chr10:27428000-27438000	Strong transcription	H1 Cell Line	embryonic stem cell
21	chr10:27428000-27438600	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr10:27428000-27438800	Strong transcription	Fetal Intestine Large	intestine
23	chr10:27428000-27439000	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr10:27428000-27441400	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
25	chr10:27428200-27437800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
26	chr10:27428200-27438000	Strong transcription	Primary B cells from peripheral blood	blood
27	chr10:27428200-27438200	Strong transcription	Duodenum Mucosa	Duodenum
28	chr10:27428200-27438600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
29	chr10:27428800-27438800	Strong transcription	Fetal Muscle Trunk	muscle
30	chr10:27429600-27438000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
31	chr10:27429600-27438600	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
32	chr10:27429800-27438200	Strong transcription	HSMM	muscle
33	chr10:27429800-27438400	Strong transcription	Adipose Nuclei	Adipose
34	chr10:27430000-27438000	Strong transcription	Rectal Mucosa Donor 31	rectum
35	chr10:27430400-27438000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
36	chr10:27431800-27437800	Strong transcription	Fetal Brain Female	brain
37	chr10:27431800-27438600	Strong transcription	Primary T cells from cord blood	blood
38	chr10:27431800-27440400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
39	chr10:27431800-27442000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
40	chr10:27432000-27438000	Strong transcription	Fetal Lung	lung
41	chr10:27432000-27438000	Strong transcription	HUVEC	blood vessel
42	chr10:27432000-27438200	Strong transcription	NHEK	skin
43	chr10:27432400-27437000	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
44	chr10:27432400-27438200	Strong transcription	NH-A	brain
45	chr10:27432400-27439200	Strong transcription	Sigmoid Colon	Sigmoid Colon
46	chr10:27432600-27437600	Strong transcription	Fetal Kidney	kidney
47	chr10:27432600-27437800	Strong transcription	Primary hematopoietic stem cells	blood
48	chr10:27432600-27438000	Strong transcription	Brain Anterior Caudate	brain
49	chr10:27432600-27438200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
50	chr10:27432800-27437600	Strong transcription	HSMMtube	muscle

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