Variant report

Variant	rs17886339
Chromosome Location	chr11:64962946-64962947
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:64961405..64963700-chrX:153773932..153776539,2	MCF-7	breast:
2	chr11:64951146..64955770-chr11:64961273..64966078,5	MCF-7	breast:
3	chr11:64887855..64889669-chr11:64961886..64966497,4	MCF-7	breast:
4	chr11:64879150..64880924-chr11:64961858..64963873,2	MCF-7	breast:
5	chr11:64949464..64950999-chr11:64962007..64964634,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000014216	Chromatin interaction
ENSG00000254501	Chromatin interaction
ENSG00000149809	Chromatin interaction
ENSG00000149792	Chromatin interaction
ENSG00000160211	Chromatin interaction
ENSG00000073009	Chromatin interaction
ENSG00000149806	Chromatin interaction

Extended variants
information (count: 39 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs11819994	1.00[EUR][1000 genomes]
rs11825104	1.00[EUR][1000 genomes]
rs11826724	1.00[EUR][1000 genomes]
rs11828131	1.00[EUR][1000 genomes]
rs17145206	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs17146681	1.00[EUR][1000 genomes]
rs17882241	1.00[EUR][1000 genomes]
rs17883601	1.00[EUR][1000 genomes]
rs17884528	1.00[EUR][1000 genomes]
rs17885792	1.00[EUR][1000 genomes]
rs57292990	1.00[EUR][1000 genomes]
rs57895567	1.00[EUR][1000 genomes]
rs58306239	1.00[EUR][1000 genomes]
rs60034183	1.00[EUR][1000 genomes]
rs60169759	1.00[EUR][1000 genomes]
rs60568743	1.00[EUR][1000 genomes]
rs61136517	1.00[EUR][1000 genomes]
rs61202604	1.00[EUR][1000 genomes]
rs61231480	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73477004	1.00[EUR][1000 genomes]
rs73477025	1.00[EUR][1000 genomes]
rs73477027	1.00[EUR][1000 genomes]
rs73477209	1.00[EUR][1000 genomes]
rs73477214	1.00[EUR][1000 genomes]
rs73477223	1.00[EUR][1000 genomes]
rs73477224	1.00[EUR][1000 genomes]
rs73477233	1.00[EUR][1000 genomes]
rs73479135	1.00[EUR][1000 genomes]
rs73480916	1.00[EUR][1000 genomes]
rs73480917	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs73480936	1.00[EUR][1000 genomes]
rs73480948	1.00[EUR][1000 genomes]
rs73495050	1.00[EUR][1000 genomes]
rs73495054	1.00[EUR][1000 genomes]
rs73495060	1.00[EUR][1000 genomes]
rs769438	1.00[EUR][1000 genomes]
rs769439	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv526181	chr11:64638041-65257329	Flanking Active TSS Enhancers Strong transcription Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	1539 gene(s)	inside rSNPs	diseases
2	nsv897713	chr11:64915042-65000719	Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	42 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:64950400-64973200	Weak transcription	Fetal Kidney	kidney
2	chr11:64950600-64992400	Weak transcription	Right Atrium	heart
3	chr11:64951000-64973600	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr11:64951000-64976200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr11:64951200-64963000	Strong transcription	Liver	Liver
6	chr11:64951200-64963000	Strong transcription	Fetal Stomach	stomach
7	chr11:64951200-64963200	Strong transcription	Fetal Muscle Trunk	muscle
8	chr11:64951200-64963600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr11:64951200-64968400	Strong transcription	Primary monocytes fromperipheralblood	blood
10	chr11:64951200-64976200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr11:64951400-64963400	Strong transcription	Fetal Muscle Leg	muscle
12	chr11:64951400-64968000	Strong transcription	Primary B cells from peripheral blood	blood
13	chr11:64951400-64979200	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr11:64951600-64976400	Weak transcription	Fetal Brain Male	brain
15	chr11:64951600-64979600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
16	chr11:64951800-64963200	Strong transcription	Fetal Intestine Large	intestine
17	chr11:64951800-64968800	Strong transcription	Rectal Mucosa Donor 29	rectum
18	chr11:64951800-64969000	Strong transcription	Skeletal Muscle Female	skeletal muscle
19	chr11:64952400-64963000	Strong transcription	Fetal Intestine Small	intestine
20	chr11:64952400-64967400	Strong transcription	Placenta	Placenta
21	chr11:64952400-64972800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
22	chr11:64952400-64980200	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
23	chr11:64952400-64992800	Weak transcription	Fetal Heart	heart
24	chr11:64952800-64967800	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr11:64952800-64968400	Strong transcription	Primary T helper cells fromperipheralblood	blood
26	chr11:64952800-64978000	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr11:64953200-64963200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr11:64953400-64964000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
29	chr11:64953600-64967600	Strong transcription	HUES64 Cell Line	embryonic stem cell
30	chr11:64953600-64971800	Strong transcription	HUES48 Cell Line	embryonic stem cell
31	chr11:64953600-64978600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
32	chr11:64954000-64968200	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr11:64954200-64968400	Strong transcription	iPS-20b Cell Line	embryonic stem cell
34	chr11:64954600-64973400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr11:64955200-64973000	Weak transcription	Stomach Mucosa	stomach
36	chr11:64957000-64965200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
37	chr11:64957000-64967600	Strong transcription	NHDF-Ad	bronchial
38	chr11:64957400-64973200	Weak transcription	Brain Substantia Nigra	brain
39	chr11:64957600-64973000	Weak transcription	Brain Angular Gyrus	brain
40	chr11:64957600-64975600	Strong transcription	Monocytes-CD14+_RO01746	blood
41	chr11:64958000-64965600	Weak transcription	Right Ventricle	heart
42	chr11:64958000-64967200	Weak transcription	Brain Germinal Matrix	brain
43	chr11:64958000-64972200	Weak transcription	HepG2	liver
44	chr11:64958000-64972400	Weak transcription	Brain Cingulate Gyrus	brain
45	chr11:64958000-64972600	Weak transcription	Brain Anterior Caudate	brain
46	chr11:64958000-64972600	Weak transcription	Brain Inferior Temporal Lobe	brain
47	chr11:64958000-64973200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
48	chr11:64958000-64973800	Weak transcription	Psoas Muscle	Psoas
49	chr11:64958200-64967200	Weak transcription	Brain Hippocampus Middle	brain
50	chr11:64958200-64971600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links