Variant report

Variant	rs11006947
Chromosome Location	chr10:28539175-28539176
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:28538446..28540994-chr10:28591436..28593319,3	MCF-7	breast:
2	chr10:28538163..28546243-chr10:28589319..28594336,15	MCF-7	breast:
3	chr10:28537244..28539673-chr10:28551271..28553158,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10826435	0.80[AFR][1000 genomes]
rs10826445	0.84[AMR][1000 genomes]
rs10826446	0.84[AMR][1000 genomes]
rs11006923	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11006927	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11006928	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11006933	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006937	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006938	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006939	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006946	0.80[AFR][1000 genomes]
rs11006950	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11006954	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006958	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006960	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006962	0.92[AFR][1000 genomes]
rs11006964	0.87[EUR][1000 genomes]
rs11006970	0.92[AFR][1000 genomes]
rs11006989	0.86[AMR][1000 genomes]
rs11006990	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006994	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006995	0.86[AMR][1000 genomes]
rs11006997	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006998	0.86[AMR][1000 genomes]
rs11006999	0.88[AMR][1000 genomes]
rs11007000	0.84[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12218294	0.84[AMR][1000 genomes]
rs12570440	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17758855	0.92[AFR][1000 genomes]
rs17831816	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1840876	1.00[CEU][hapmap]
rs1870097	0.82[AFR][1000 genomes]
rs1870098	0.82[AFR][1000 genomes]
rs1953324	0.87[AFR][1000 genomes]
rs2085471	0.82[AFR][1000 genomes]
rs2100615	0.92[AFR][1000 genomes]
rs2100616	0.82[AFR][1000 genomes]
rs2368306	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35016093	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3842931	0.86[AMR][1000 genomes]
rs3847387	0.84[AMR][1000 genomes]
rs4598572	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4604776	0.86[AMR][1000 genomes]
rs57441879	0.86[AMR][1000 genomes]
rs61845911	0.82[AFR][1000 genomes]
rs7901835	0.84[AMR][1000 genomes]
rs7902785	0.86[AMR][1000 genomes]
rs7903242	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7916067	0.86[AMR][1000 genomes]
rs7916711	0.84[AMR][1000 genomes]
rs7916740	0.84[AMR][1000 genomes]

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	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	nsv831817	chr10:28369836-28539930	Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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:35 , 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	chr10:28527600-28539600	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr10:28532400-28541200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr10:28535800-28541200	Weak transcription	Psoas Muscle	Psoas
6	chr10:28535800-28551600	Weak transcription	Fetal Intestine Small	intestine
7	chr10:28537400-28552600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr10:28537600-28539400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr10:28537600-28539600	Weak transcription	Colon Smooth Muscle	Colon
10	chr10:28537600-28539600	Weak transcription	HSMM	muscle
11	chr10:28537600-28540600	Weak transcription	Aorta	Aorta
12	chr10:28537600-28540600	Weak transcription	HSMMtube	muscle
13	chr10:28537600-28543000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
14	chr10:28537600-28549400	Weak transcription	Primary T helper cells fromperipheralblood	blood
15	chr10:28537600-28552600	Weak transcription	Primary T cells from cord blood	blood
16	chr10:28537800-28541800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr10:28537800-28541800	Weak transcription	Esophagus	oesophagus
18	chr10:28537800-28542800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr10:28537800-28543000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr10:28537800-28543000	Weak transcription	Primary B cells from cord blood	blood
21	chr10:28537800-28543200	Weak transcription	Primary hematopoietic stem cells	blood
22	chr10:28537800-28543600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
23	chr10:28537800-28550200	Weak transcription	Primary T helper cells PMA-I stimulated	--
24	chr10:28538000-28542200	Weak transcription	HMEC	breast
25	chr10:28538000-28542200	Weak transcription	NHEK	skin
26	chr10:28538000-28542400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
27	chr10:28538000-28543000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
28	chr10:28538000-28543200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
29	chr10:28538000-28543800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr10:28538200-28539800	Enhancers	Skeletal Muscle Male	skeletal muscle
31	chr10:28538800-28540000	Weak transcription	Primary monocytes fromperipheralblood	blood
32	chr10:28538800-28541000	Weak transcription	Monocytes-CD14+_RO01746	blood
33	chr10:28538800-28541200	Weak transcription	Fetal Heart	heart
34	chr10:28538800-28541400	Weak transcription	Primary neutrophils fromperipheralblood	blood
35	chr10:28538800-28544400	Weak transcription	Left Ventricle	heart

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