Variant report

Variant	rs11733522
Chromosome Location	chr4:6960802-6960803
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:6960514..6963431-chr4:7068711..7072755,3	MCF-7	breast:
2	chr4:6954554..6957687-chr4:6958182..6961347,5	K562	blood:

Variant related genes	Relation type
ENSG00000265953	Chromatin interaction
ENSG00000109519	Chromatin interaction
ENSG00000132405	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10009332	0.80[ASN][1000 genomes]
rs10937768	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10937769	0.83[ASN][1000 genomes]
rs10937770	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10937771	0.80[ASN][1000 genomes]
rs11723651	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11723686	0.81[ASN][1000 genomes]
rs11723719	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11728984	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11731639	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11732389	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11732887	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11736355	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11930747	0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11942739	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12499678	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12512922	0.83[ASN][1000 genomes]
rs13114976	0.85[ASN][1000 genomes]
rs13149280	0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs28392702	0.82[ASN][1000 genomes]
rs28425595	0.90[ASN][1000 genomes]
rs35490604	0.85[ASN][1000 genomes]
rs3857172	0.80[AMR][1000 genomes]
rs3857173	0.80[AMR][1000 genomes]
rs3892976	0.85[ASN][1000 genomes]
rs4234790	0.81[ASN][1000 genomes]
rs4261987	0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4315786	0.84[ASN][1000 genomes]
rs4346651	0.88[ASN][1000 genomes]
rs4484301	0.83[ASN][1000 genomes]
rs4513567	0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4689055	0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4689057	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4689061	0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs58935653	0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs61488923	0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62291136	0.82[EUR][1000 genomes]
rs62292202	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6446550	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6446551	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6446552	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6446553	0.92[ASN][1000 genomes]
rs6831368	0.91[ASN][1000 genomes]
rs6831590	0.92[ASN][1000 genomes]
rs6834007	0.81[ASN][1000 genomes]
rs6848114	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7664348	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7668186	0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7689337	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7695050	0.80[AMR][1000 genomes]
rs9291123	0.83[ASN][1000 genomes]
rs9291124	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9790586	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9999025	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9999127	0.80[ASN][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	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:97 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6928000-6969600	Weak transcription	Aorta	Aorta
2	chr4:6945000-6970200	Weak transcription	Hela-S3	cervix
3	chr4:6945800-6965800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr4:6946600-6969000	Weak transcription	Dnd41	blood
5	chr4:6948600-6962400	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr4:6950400-6963800	Weak transcription	Small Intestine	intestine
7	chr4:6954000-6964000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
8	chr4:6954400-6965800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
9	chr4:6954800-6962800	Weak transcription	Primary monocytes fromperipheralblood	blood
10	chr4:6955000-6962600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:6955600-6961800	Enhancers	Pancreas	Pancrea
12	chr4:6955800-6976000	Weak transcription	Rectal Smooth Muscle	rectum
13	chr4:6956000-6961400	Weak transcription	Fetal Brain Female	brain
14	chr4:6956000-6962000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr4:6956000-6964600	Weak transcription	Right Atrium	heart
16	chr4:6956000-6967000	Weak transcription	Psoas Muscle	Psoas
17	chr4:6956000-6976000	Weak transcription	Colon Smooth Muscle	Colon
18	chr4:6956200-6961000	Weak transcription	Left Ventricle	heart
19	chr4:6956200-6961400	Weak transcription	Brain Substantia Nigra	brain
20	chr4:6956200-6962200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
21	chr4:6956200-6962600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
22	chr4:6956200-6962600	Weak transcription	Fetal Stomach	stomach
23	chr4:6956200-6963000	Weak transcription	Skeletal Muscle Female	skeletal muscle
24	chr4:6956200-6963800	Weak transcription	Duodenum Mucosa	Duodenum
25	chr4:6956200-6964000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
26	chr4:6956200-6964400	Weak transcription	Adipose Nuclei	Adipose
27	chr4:6956200-6964400	Weak transcription	Colonic Mucosa	Colon
28	chr4:6956200-6964600	Weak transcription	Rectal Mucosa Donor 29	rectum
29	chr4:6956200-6964600	Weak transcription	NHLF	lung
30	chr4:6956200-6965000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
31	chr4:6956400-6962600	Weak transcription	Skeletal Muscle Male	skeletal muscle
32	chr4:6956400-6969200	Weak transcription	K562	blood
33	chr4:6956800-6961000	Weak transcription	Fetal Brain Male	brain
34	chr4:6957400-6961000	Weak transcription	Brain Angular Gyrus	brain
35	chr4:6957400-6962600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
36	chr4:6957400-6962600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr4:6957400-6963200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr4:6957400-6963800	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr4:6957600-6961000	Weak transcription	Brain Hippocampus Middle	brain
40	chr4:6957600-6962000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr4:6957600-6962000	Weak transcription	Brain Cingulate Gyrus	brain
42	chr4:6957600-6962200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr4:6957600-6962200	Weak transcription	Brain Anterior Caudate	brain
44	chr4:6957600-6962800	Weak transcription	Cortex derived primary cultured neurospheres	brain
45	chr4:6957600-6963400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
46	chr4:6957600-6963600	Weak transcription	HUES6 Cell Line	embryonic stem cell
47	chr4:6957600-6963800	Weak transcription	H9 Cell Line	embryonic stem cell
48	chr4:6957600-6970400	Weak transcription	Placenta Amnion	Placenta Amnion
49	chr4:6957600-6973800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
50	chr4:6957600-6976000	Weak transcription	Fetal Lung	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links