Variant report

Variant	rs17209169
Chromosome Location	chr11:85555444-85555445
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:11)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:11 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr11:85553949..85557231-chr11:85564538..85567553,4	MCF-7	breast:
2	chr11:85518980..85522247-chr11:85555372..85557782,5	MCF-7	breast:
3	chr11:85374657..85377519-chr11:85553328..85556273,3	MCF-7	breast:
4	chr11:85554738..85557275-chr11:85564156..85566058,2	K562	blood:
5	chr11:85535912..85542788-chr11:85553207..85557743,22	MCF-7	breast:
6	chr11:85554468..85557167-chr11:85560907..85564178,3	MCF-7	breast:
7	chr11:85542289..85542895-chr11:85555344..85556058,2	MCF-7	breast:
8	chr11:85546125..85548288-chr11:85553041..85556244,4	MCF-7	breast:
9	chr11:85519432..85524089-chr11:85553392..85557771,8	MCF-7	breast:
10	chr11:85535201..85544742-chr11:85551836..85558472,22	MCF-7	breast:
11	chr11:85545547..85548026-chr11:85554276..85555981,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000150676	Chromatin interaction
ENSG00000137504	Chromatin interaction
ENSG00000137501	Chromatin interaction
ENSG00000215504	Chromatin interaction

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10501599	1.00[JPT][hapmap]
rs10501601	1.00[JPT][hapmap]
rs10898422	0.85[CHB][hapmap];0.81[JPT][hapmap];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11234436	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11234437	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234442	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11234445	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs11234448	0.85[EUR][1000 genomes]
rs11234450	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11234453	0.86[ASN][1000 genomes]
rs11234455	0.85[CHB][hapmap];0.89[JPT][hapmap];0.83[AMR][1000 genomes]
rs11234460	0.85[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11234461	0.85[CHB][hapmap];0.90[JPT][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11234465	1.00[JPT][hapmap]
rs11234467	1.00[JPT][hapmap]
rs12274739	1.00[JPT][hapmap]
rs12286312	1.00[JPT][hapmap]
rs12360932	0.85[CHB][hapmap];0.90[JPT][hapmap];0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs12362209	1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12363602	0.85[CHB][hapmap];0.89[JPT][hapmap]
rs12363624	0.85[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs1445508	1.00[JPT][hapmap]
rs17148564	1.00[JPT][hapmap]
rs17148574	1.00[JPT][hapmap]
rs17817402	1.00[JPT][hapmap]
rs17817444	1.00[JPT][hapmap]
rs725459	1.00[JPT][hapmap]
rs7926846	1.00[JPT][hapmap]
rs7934759	1.00[JPT][hapmap]
rs7936092	0.82[CHB][hapmap];0.90[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:13 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051155	chr11:85006564-85721261	Weak transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
2	nsv541110	chr11:85006564-85721261	Enhancers Strong transcription Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
3	esv2758279	chr11:85180480-85603988	Flanking Active TSS Active TSS Weak transcription Enhancers Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
4	esv2759845	chr11:85180480-85603988	Flanking Active TSS Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	56 gene(s)	inside rSNPs	diseases
5	nsv832222	chr11:85405712-85603981	Enhancers Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
6	nsv1047147	chr11:85459235-85594800	Flanking Active TSS Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
7	nsv541114	chr11:85459235-85594800	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases
8	esv2762927	chr11:85468051-85559618	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases
9	nsv1035489	chr11:85502953-85778229	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
10	nsv1048818	chr11:85524635-85746473	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
11	nsv541116	chr11:85524635-85746473	Enhancers Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
12	nsv975332	chr11:85535584-85559775	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region	10 gene(s)	inside rSNPs	diseases
13	nsv898051	chr11:85554057-85620823	Enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:85540000-85565000	Weak transcription	Ovary	ovary
2	chr11:85553400-85563400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr11:85554600-85557200	Enhancers	HMEC	breast
4	chr11:85554800-85555800	Enhancers	Hela-S3	cervix
5	chr11:85554800-85556400	Enhancers	Stomach Mucosa	stomach
6	chr11:85555000-85556000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
7	chr11:85555000-85556000	Enhancers	Pancreas	Pancrea
8	chr11:85555000-85556200	Enhancers	NH-A	brain
9	chr11:85555000-85556600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr11:85555000-85556600	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr11:85555000-85556600	Enhancers	NHEK	skin
12	chr11:85555000-85557200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr11:85555200-85556200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr11:85555200-85556200	Flanking Active TSS	A549	lung
15	chr11:85555200-85556400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
16	chr11:85555200-85556600	Enhancers	Muscle Satellite Cultured Cells	--
17	chr11:85555200-85557400	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr11:85555400-85555600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
19	chr11:85555400-85555800	Enhancers	Primary neutrophils fromperipheralblood	blood
20	chr11:85555400-85556400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr11:85555400-85556400	Enhancers	Osteobl	bone
22	chr11:85555400-85556600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr11:85555400-85556600	Enhancers	NHDF-Ad	bronchial

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