Variant report

Variant	rs11006948
Chromosome Location	chr10:28540008-28540009
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:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:28539624..28540254-chr10:28682584..28683417,3	MCF-7	breast:
2	chr10:28539430..28540090-chr10:28591199..28592133,2	MCF-7	breast:
3	chr10:28539425..28540161-chr10:28591149..28592115,2	MCF-7	breast:
4	chr10:28539451..28540308-chr10:28670844..28671358,2	MCF-7	breast:
5	chr10:28539412..28540373-chr10:28682585..28683618,3	MCF-7	breast:
6	chr10:28539253..28540394-chr10:28670796..28671544,5	K562	blood:
7	chr10:28538446..28540994-chr10:28591436..28593319,3	MCF-7	breast:
8	chr10:28538163..28546243-chr10:28589319..28594336,15	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 62 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10826432	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11006932	0.86[CEU][hapmap]
rs11006935	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11006936	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11006941	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11006942	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs11006952	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006953	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs11006971	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006972	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11006980	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11006981	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11006982	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs11007002	1.00[AFR][1000 genomes]
rs12098410	0.85[ASN][1000 genomes]
rs12254745	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12355677	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12356457	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12357385	0.86[CEU][hapmap];1.00[AFR][1000 genomes]
rs12357685	0.97[AMR][1000 genomes]
rs12358648	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1418758	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs16928633	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs1840878	0.90[ASN][1000 genomes]
rs1892395	1.00[JPT][hapmap]
rs2100614	1.00[JPT][hapmap];1.00[YRI][hapmap]
rs2607548	0.86[CEU][hapmap];1.00[YRI][hapmap]
rs2763315	0.85[CEU][hapmap]
rs2801845	0.86[CEU][hapmap]
rs2887214	0.85[CEU][hapmap]
rs2985524	0.86[CEU][hapmap]
rs2985525	0.86[CEU][hapmap]
rs2985529	0.86[CEU][hapmap]
rs2985530	0.86[CEU][hapmap]
rs2985533	0.86[CEU][hapmap]
rs2997203	0.86[CEU][hapmap]
rs2997208	0.85[CEU][hapmap]
rs34130351	0.90[ASN][1000 genomes]
rs41406248	0.93[CEU][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs4747617	0.86[CEU][hapmap]
rs61845938	1.00[AFR][1000 genomes]
rs6481512	0.90[ASN][1000 genomes]
rs7070175	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7072173	1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7073107	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7078271	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7081423	0.85[CEU][hapmap]
rs7090006	0.86[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes]
rs7100335	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7100619	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74129024	0.83[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7896797	0.90[ASN][1000 genomes]
rs7903957	0.86[CEU][hapmap]
rs7911615	1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs7914949	0.86[CEU][hapmap]
rs7916525	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7923023	0.93[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	nsv525448	chr10:28337570-28563732	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	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
4	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
5	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:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:28519000-28552000	Weak transcription	Fetal Stomach	stomach
2	chr10:28521800-28544400	Weak transcription	Pancreas	Pancrea
3	chr10:28532400-28541200	Weak transcription	Stomach Smooth Muscle	stomach
4	chr10:28535800-28541200	Weak transcription	Psoas Muscle	Psoas
5	chr10:28535800-28551600	Weak transcription	Fetal Intestine Small	intestine
6	chr10:28537400-28552600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:28537600-28540600	Weak transcription	Aorta	Aorta
8	chr10:28537600-28540600	Weak transcription	HSMMtube	muscle
9	chr10:28537600-28543000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr10:28537600-28549400	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr10:28537600-28552600	Weak transcription	Primary T cells from cord blood	blood
12	chr10:28537800-28541800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr10:28537800-28541800	Weak transcription	Esophagus	oesophagus
14	chr10:28537800-28542800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
15	chr10:28537800-28543000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:28537800-28543000	Weak transcription	Primary B cells from cord blood	blood
17	chr10:28537800-28543200	Weak transcription	Primary hematopoietic stem cells	blood
18	chr10:28537800-28543600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr10:28537800-28550200	Weak transcription	Primary T helper cells PMA-I stimulated	--
20	chr10:28538000-28542200	Weak transcription	HMEC	breast
21	chr10:28538000-28542200	Weak transcription	NHEK	skin
22	chr10:28538000-28542400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr10:28538000-28543000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
24	chr10:28538000-28543200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr10:28538000-28543800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
26	chr10:28538800-28541000	Weak transcription	Monocytes-CD14+_RO01746	blood
27	chr10:28538800-28541200	Weak transcription	Fetal Heart	heart
28	chr10:28538800-28541400	Weak transcription	Primary neutrophils fromperipheralblood	blood
29	chr10:28538800-28544400	Weak transcription	Left Ventricle	heart
30	chr10:28539600-28540200	Enhancers	HSMM	muscle
31	chr10:28539800-28540400	Weak transcription	Rectal Smooth Muscle	rectum
32	chr10:28539800-28540600	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr10:28539800-28540800	Weak transcription	Skeletal Muscle Female	skeletal muscle
34	chr10:28539800-28541200	Weak transcription	Colon Smooth Muscle	Colon
35	chr10:28539800-28543200	Weak transcription	Duodenum Smooth Muscle	Duodenum
36	chr10:28540000-28542400	Weak transcription	Hela-S3	cervix
37	chr10:28540000-28544200	Enhancers	Primary monocytes fromperipheralblood	blood

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