Variant report

Variant	rs1148175
Chromosome Location	chr10:28590405-28590406
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	chr10:28570371..28575406-chr10:28590076..28593528,7	MCF-7	breast:
2	chr10:28548955..28550637-chr10:28589374..28591919,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 58 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1004270	0.85[ASN][1000 genomes]
rs10763654	0.95[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs10763655	1.00[CHB][hapmap];0.95[CHD][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs10763656	0.81[ASN][1000 genomes]
rs10763657	0.84[ASN][1000 genomes]
rs10763658	0.98[ASN][1000 genomes]
rs10763659	0.85[ASN][1000 genomes]
rs10826425	0.86[JPT][hapmap]
rs10826433	0.83[ASN][1000 genomes]
rs10826435	0.95[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs10826436	0.83[ASN][1000 genomes]
rs10826449	0.95[CHB][hapmap];0.86[CHD][hapmap];0.90[JPT][hapmap];0.85[ASN][1000 genomes]
rs10826450	0.84[ASN][1000 genomes]
rs11006946	0.84[ASN][1000 genomes]
rs11006956	0.84[ASN][1000 genomes]
rs11006957	0.95[CHB][hapmap];0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs11006965	0.95[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs11006970	0.91[CHB][hapmap];0.86[CHD][hapmap];0.91[JPT][hapmap];0.83[ASN][1000 genomes]
rs11006992	0.87[JPT][hapmap]
rs11006995	0.87[JPT][hapmap]
rs11007007	0.85[ASN][1000 genomes]
rs11007008	0.85[ASN][1000 genomes]
rs1144513	0.84[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs1144514	0.88[ASN][1000 genomes]
rs1148174	0.85[GIH][hapmap]
rs12221389	0.85[ASN][1000 genomes]
rs12221390	0.85[ASN][1000 genomes]
rs12256403	0.88[CEU][hapmap];0.86[CHB][hapmap];0.97[GIH][hapmap];0.87[TSI][hapmap];0.86[EUR][1000 genomes]
rs1249420	0.86[ASN][1000 genomes]
rs1418757	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs1418759	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs17758855	0.91[CHB][hapmap];0.91[JPT][hapmap]
rs1870097	0.95[CHB][hapmap];0.95[CHD][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs1870098	0.91[CHB][hapmap];0.88[CHD][hapmap];0.84[ASN][1000 genomes]
rs1953322	0.83[ASN][1000 genomes]
rs2085471	0.84[ASN][1000 genomes]
rs2100615	0.90[CHB][hapmap];0.91[JPT][hapmap]
rs2100616	0.84[ASN][1000 genomes]
rs2124955	0.88[CEU][hapmap];0.81[CHB][hapmap];0.82[GIH][hapmap]
rs2368307	0.85[ASN][1000 genomes]
rs2607540	0.95[CHB][hapmap];0.88[CHD][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs3842931	0.87[JPT][hapmap]
rs3847386	0.81[ASN][1000 genomes]
rs3847388	0.95[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs60705071	0.85[ASN][1000 genomes]
rs61845911	0.84[ASN][1000 genomes]
rs6481515	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs7072480	0.84[ASN][1000 genomes]
rs7088465	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs7905490	0.86[CHB][hapmap];0.81[CHD][hapmap]
rs7913970	0.95[CHB][hapmap];0.91[JPT][hapmap]
rs9663446	0.81[EUR][1000 genomes]
rs9919403	0.86[ASN][1000 genomes]
rs9919516	0.83[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:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28580600-28591000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:28581800-28590600	Weak transcription	HMEC	breast
3	chr10:28582200-28590800	Enhancers	Primary T helper naive cells from peripheral blood	blood
4	chr10:28582400-28590600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
5	chr10:28583000-28590600	Weak transcription	H1 Cell Line	embryonic stem cell
6	chr10:28583200-28590800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr10:28584400-28590600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr10:28584800-28591000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr10:28585000-28590600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
10	chr10:28585400-28590600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr10:28585400-28590600	Weak transcription	Psoas Muscle	Psoas
12	chr10:28585400-28590800	Weak transcription	Adipose Nuclei	Adipose
13	chr10:28585600-28590600	Weak transcription	HUES6 Cell Line	embryonic stem cell
14	chr10:28585600-28590600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
15	chr10:28585600-28590600	Weak transcription	Fetal Intestine Small	intestine
16	chr10:28585600-28590600	Weak transcription	Stomach Mucosa	stomach
17	chr10:28585600-28590800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr10:28585600-28590800	Weak transcription	Fetal Stomach	stomach
19	chr10:28585600-28591000	Weak transcription	HSMMtube	muscle
20	chr10:28586000-28590600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr10:28586800-28590600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
22	chr10:28587400-28590800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
23	chr10:28588000-28590600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr10:28588200-28590800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
25	chr10:28588200-28590800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
26	chr10:28588400-28590600	Weak transcription	Primary T cells fromperipheralblood	blood
27	chr10:28588400-28590800	Enhancers	Primary monocytes fromperipheralblood	blood
28	chr10:28588400-28591200	Weak transcription	Small Intestine	intestine
29	chr10:28589000-28590600	Enhancers	HepG2	liver
30	chr10:28589400-28590600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr10:28589800-28592800	Active TSS	Stomach Smooth Muscle	stomach
32	chr10:28590000-28590600	Enhancers	HUES48 Cell Line	embryonic stem cell
33	chr10:28590000-28590800	Active TSS	Placenta	Placenta
34	chr10:28590000-28591000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
35	chr10:28590200-28590600	Enhancers	Primary T cells from cord blood	blood
36	chr10:28590200-28590600	Enhancers	Primary T killer memory cells from peripheral blood	blood
37	chr10:28590200-28590800	Enhancers	Brain Germinal Matrix	brain
38	chr10:28590200-28590800	Enhancers	Duodenum Smooth Muscle	Duodenum
39	chr10:28590200-28590800	Enhancers	Fetal Heart	heart
40	chr10:28590400-28590600	Enhancers	Breast Myoepithelial Primary Cells	Breast
41	chr10:28590400-28590600	Enhancers	Primary hematopoietic stem cells	blood
42	chr10:28590400-28590600	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
43	chr10:28590400-28590600	Active TSS	Pancreatic Islets	Pancreatic Islet
44	chr10:28590400-28590600	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr10:28590400-28590600	Enhancers	Skeletal Muscle Male	skeletal muscle
46	chr10:28590400-28590800	Enhancers	Fetal Intestine Large	intestine
47	chr10:28590400-28590800	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
48	chr10:28590400-28590800	Enhancers	Rectal Smooth Muscle	rectum
49	chr10:28590400-28591000	Enhancers	Primary B cells from cord blood	blood
50	chr10:28590400-28591000	Enhancers	Liver	Liver

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