Variant report

Variant	rs11006958
Chromosome Location	chr10:28544070-28544071
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:28543012..28546500-chr10:28550223..28554148,7	MCF-7	breast:
2	chr10:28538163..28546243-chr10:28589319..28594336,15	MCF-7	breast:
3	chr10:28542577..28545073-chr10:28590628..28593089,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000150054	Chromatin interaction

Extended variants
information (count: 54 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10763651	0.85[AMR][1000 genomes]
rs10826445	0.92[AMR][1000 genomes]
rs10826446	0.92[AMR][1000 genomes]
rs11006833	1.00[YRI][hapmap]
rs11006889	1.00[YRI][hapmap]
rs11006913	1.00[ASW][hapmap];0.84[MEX][hapmap];1.00[YRI][hapmap]
rs11006923	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11006927	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11006928	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[CHD][hapmap];0.95[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11006933	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006937	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006938	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006939	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11006947	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006950	0.91[AMR][1000 genomes]
rs11006954	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006960	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11006964	1.00[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs11006989	0.90[AMR][1000 genomes]
rs11006990	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006992	1.00[MEX][hapmap]
rs11006993	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap]
rs11006994	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006995	1.00[MEX][hapmap];0.90[AMR][1000 genomes]
rs11006997	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11006998	0.90[AMR][1000 genomes]
rs11006999	0.88[AMR][1000 genomes]
rs11007000	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11007003	0.82[CHB][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap]
rs11007004	0.80[AMR][1000 genomes]
rs11527607	1.00[YRI][hapmap]
rs12218294	0.88[AMR][1000 genomes]
rs12570440	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs17831816	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2368306	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs35016093	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3842931	0.90[AMR][1000 genomes]
rs4317882	0.84[MEX][hapmap]
rs4506531	0.84[MEX][hapmap]
rs4598572	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4604776	0.90[AMR][1000 genomes]
rs57441879	0.90[AMR][1000 genomes]
rs7901835	0.92[AMR][1000 genomes]
rs7902785	0.90[AMR][1000 genomes]
rs7903242	1.00[CEU][hapmap];0.95[CHB][hapmap];0.91[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7916067	0.90[AMR][1000 genomes]
rs7916711	0.92[AMR][1000 genomes]
rs7916740	0.92[AMR][1000 genomes]
rs927676	1.00[YRI][hapmap]

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:33 , 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	chr10:28535800-28551600	Weak transcription	Fetal Intestine Small	intestine
4	chr10:28537400-28552600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr10:28537600-28549400	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr10:28537600-28552600	Weak transcription	Primary T cells from cord blood	blood
7	chr10:28537800-28550200	Weak transcription	Primary T helper cells PMA-I stimulated	--
8	chr10:28538800-28544400	Weak transcription	Left Ventricle	heart
9	chr10:28540000-28544200	Enhancers	Primary monocytes fromperipheralblood	blood
10	chr10:28540400-28544200	Enhancers	Rectal Smooth Muscle	rectum
11	chr10:28542000-28549400	Weak transcription	Skeletal Muscle Male	skeletal muscle
12	chr10:28542400-28552400	Weak transcription	Psoas Muscle	Psoas
13	chr10:28542800-28550200	Weak transcription	Aorta	Aorta
14	chr10:28543000-28544200	Enhancers	Muscle Satellite Cultured Cells	--
15	chr10:28543000-28544200	Enhancers	Monocytes-CD14+_RO01746	blood
16	chr10:28543200-28545000	Enhancers	Duodenum Smooth Muscle	Duodenum
17	chr10:28543600-28544200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr10:28543600-28544200	Enhancers	Stomach Mucosa	stomach
19	chr10:28543600-28544200	Flanking Active TSS	Hela-S3	cervix
20	chr10:28543800-28545000	Enhancers	Colon Smooth Muscle	Colon
21	chr10:28543800-28545800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
22	chr10:28543800-28546400	Enhancers	HMEC	breast
23	chr10:28543800-28549200	Weak transcription	Stomach Smooth Muscle	stomach
24	chr10:28544000-28544200	Enhancers	Osteobl	bone
25	chr10:28544000-28545400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr10:28544000-28545600	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr10:28544000-28545800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
28	chr10:28544000-28545800	Weak transcription	NH-A	brain
29	chr10:28544000-28545800	Enhancers	NHEK	skin
30	chr10:28544000-28546200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr10:28544000-28549400	Weak transcription	Skeletal Muscle Female	skeletal muscle
32	chr10:28544000-28552200	Weak transcription	Fetal Heart	heart
33	chr10:28544000-28555600	Weak transcription	Primary hematopoietic stem cells	blood

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