Variant report

Variant	rs73552526
Chromosome Location	chr9:100363168-100363169
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:100262755..100264674-chr9:100361265..100363370,2	MCF-7	breast:
2	chr9:100229670..100231285-chr9:100361449..100364307,2	MCF-7	breast:
3	chr9:100361131..100364262-chr9:100393910..100395873,3	MCF-7	breast:
4	chr9:100361939..100364990-chr9:100392848..100396083,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136937	Chromatin interaction
ENSG00000136925	Chromatin interaction
ENSG00000136842	Chromatin interaction
ENSG00000196116	Chromatin interaction

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10982836	0.88[AFR][1000 genomes]
rs1126122	0.94[AFR][1000 genomes]
rs3176627	0.94[AFR][1000 genomes]
rs3176677	0.94[AFR][1000 genomes]
rs3176692	0.94[AFR][1000 genomes]
rs3176695	0.94[AFR][1000 genomes]
rs3176717	0.94[AFR][1000 genomes]
rs3176728	0.94[AFR][1000 genomes]
rs3176752	0.94[AFR][1000 genomes]
rs3176758	0.94[AFR][1000 genomes]
rs35251482	0.94[AFR][1000 genomes]
rs3824494	1.00[AFR][1000 genomes]
rs55900941	0.94[AFR][1000 genomes]
rs56023926	0.94[AFR][1000 genomes]
rs56164437	0.94[AFR][1000 genomes]
rs56412432	0.94[AFR][1000 genomes]
rs57612395	0.94[AFR][1000 genomes]
rs57666011	0.83[AFR][1000 genomes]
rs57940370	0.94[AFR][1000 genomes]
rs58272409	0.94[AFR][1000 genomes]
rs59782843	0.94[AFR][1000 genomes]
rs59945109	0.94[AFR][1000 genomes]
rs60197625	1.00[AFR][1000 genomes]
rs60353451	0.94[AFR][1000 genomes]
rs60359353	0.94[AFR][1000 genomes]
rs60779859	0.94[AFR][1000 genomes]
rs61010519	0.94[AFR][1000 genomes]
rs61152667	0.94[AFR][1000 genomes]
rs73484437	0.94[AFR][1000 genomes]
rs73484439	0.94[AFR][1000 genomes]
rs73498320	0.94[AFR][1000 genomes]
rs73498331	0.94[AFR][1000 genomes]
rs73498342	0.94[AFR][1000 genomes]
rs73498350	0.94[AFR][1000 genomes]
rs73498374	0.94[AFR][1000 genomes]
rs73498394	0.94[AFR][1000 genomes]
rs73498399	0.94[AFR][1000 genomes]
rs73498401	0.94[AFR][1000 genomes]
rs73500372	0.94[AFR][1000 genomes]
rs73502207	0.88[AFR][1000 genomes]
rs73502218	0.94[AFR][1000 genomes]
rs73551083	0.94[AFR][1000 genomes]
rs73554626	0.94[AFR][1000 genomes]
rs73554629	0.94[AFR][1000 genomes]
rs73554645	0.94[AFR][1000 genomes]
rs73554654	0.94[AFR][1000 genomes]
rs73655154	0.94[AFR][1000 genomes]
rs73655163	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039240	chr9:100292680-100415269	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Enhancers Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
2	nsv540179	chr9:100292680-100415269	Genic enhancers Strong transcription Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	27 gene(s)	inside rSNPs	diseases
3	nsv893610	chr9:100324086-100496160	Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100348800-100384000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr9:100353200-100363200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
3	chr9:100357200-100363800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr9:100359200-100363400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr9:100360000-100364400	Weak transcription	Fetal Kidney	kidney
6	chr9:100360600-100363600	Weak transcription	NHEK	skin
7	chr9:100360800-100363200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr9:100361000-100363200	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr9:100361000-100363200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
10	chr9:100361000-100363200	Weak transcription	Right Ventricle	heart
11	chr9:100361000-100363800	Weak transcription	Colonic Mucosa	Colon
12	chr9:100361000-100364000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr9:100361000-100364400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr9:100361000-100367200	Weak transcription	Small Intestine	intestine
15	chr9:100361000-100381200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr9:100361200-100363400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
17	chr9:100361200-100363400	Weak transcription	HepG2	liver
18	chr9:100361200-100364000	Weak transcription	Fetal Thymus	thymus
19	chr9:100361200-100365400	Weak transcription	Stomach Mucosa	stomach
20	chr9:100361200-100366600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
21	chr9:100361200-100366600	Weak transcription	NH-A	brain
22	chr9:100361200-100368400	Strong transcription	Brain Anterior Caudate	brain
23	chr9:100361400-100363200	Weak transcription	Brain Substantia Nigra	brain
24	chr9:100361400-100363200	Strong transcription	Fetal Muscle Leg	muscle
25	chr9:100361400-100363200	Strong transcription	Left Ventricle	heart
26	chr9:100361400-100364400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
27	chr9:100361400-100368600	Strong transcription	Hela-S3	cervix
28	chr9:100361400-100370000	Strong transcription	Duodenum Smooth Muscle	Duodenum
29	chr9:100361600-100363800	Genic enhancers	Skeletal Muscle Male	skeletal muscle
30	chr9:100361600-100364400	Strong transcription	Fetal Muscle Trunk	muscle
31	chr9:100361600-100365000	Strong transcription	K562	blood
32	chr9:100361600-100365400	Strong transcription	Pancreatic Islets	Pancreatic Islet
33	chr9:100361600-100366400	Weak transcription	NHDF-Ad	bronchial
34	chr9:100361600-100368400	Strong transcription	Stomach Smooth Muscle	stomach
35	chr9:100361600-100369000	Strong transcription	Cortex derived primary cultured neurospheres	brain
36	chr9:100361600-100369200	Genic enhancers	Skeletal Muscle Female	skeletal muscle
37	chr9:100361600-100369400	Strong transcription	Primary T helper cells fromperipheralblood	blood
38	chr9:100361600-100369800	Strong transcription	Dnd41	blood
39	chr9:100361600-100370200	Strong transcription	Brain Hippocampus Middle	brain
40	chr9:100361600-100371000	Strong transcription	Brain Inferior Temporal Lobe	brain
41	chr9:100361600-100371200	Strong transcription	Liver	Liver
42	chr9:100361600-100371400	Strong transcription	Brain Dorsolateral Prefrontal Cortex	brain
43	chr9:100361600-100371600	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr9:100361600-100375800	Strong transcription	Primary B cells from peripheral blood	blood
45	chr9:100361800-100363400	Weak transcription	Placenta Amnion	Placenta Amnion
46	chr9:100361800-100364400	Weak transcription	Primary hematopoietic stem cells	blood
47	chr9:100361800-100364400	Weak transcription	Muscle Satellite Cultured Cells	--
48	chr9:100361800-100365600	Genic enhancers	Fetal Adrenal Gland	Adrenal Gland
49	chr9:100361800-100368400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
50	chr9:100361800-100368400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links