Variant report

Variant	rs73408025
Chromosome Location	chr11:8615306-8615307
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:8614018..8615815-chr11:8704377..8705921,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-TRIM66-5	chr11:8615291-8615532	NONHSAT017850

Variant related genes	Relation type
ENSG00000200983	Chromatin interaction
ENSG00000166441	Chromatin interaction

Extended variants
information (count: 79 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:77)

rs_ID	r²[population]
rs10437594	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10437663	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10743077	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10769909	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10769912	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10769913	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840046	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10840048	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10840049	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840053	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10840054	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840059	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840068	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840069	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840071	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840073	1.00[ASN][1000 genomes]
rs10840074	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10840075	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10840076	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10840078	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10840082	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10840086	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10840088	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041922	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11041923	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11041928	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041936	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041937	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041938	1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041942	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041956	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041957	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041959	1.00[ASN][1000 genomes]
rs11041961	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11041984	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041987	0.89[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041988	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041989	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11041992	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11042001	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11042005	0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11042009	0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11042010	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11042027	0.87[EUR][1000 genomes]
rs11512437	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11517716	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12281197	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12282087	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12282398	1.00[ASN][1000 genomes]
rs12283443	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12361165	1.00[ASN][1000 genomes]
rs12362755	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12364516	0.87[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs12364713	0.93[ASN][1000 genomes]
rs12365973	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12418359	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12418525	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12419725	1.00[EUR][1000 genomes]
rs12422205	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12573963	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12575045	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1867812	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2100066	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34381273	0.93[ASN][1000 genomes]
rs4450173	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4627069	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs58364522	1.00[ASN][1000 genomes]
rs59084068	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7102605	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7108120	0.90[ASN][1000 genomes]
rs7108379	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7127840	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs726008	1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs73403636	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73408023	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7941120	0.81[ASN][1000 genomes]
rs9737172	0.93[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	esv2751035	chr11:8431654-8685451	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv896983	chr11:8526643-8682465	ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:105 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:8610000-8615400	Weak transcription	Aorta	Aorta
2	chr11:8614600-8616000	Active TSS	GM12878-XiMat	blood
3	chr11:8614600-8616400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr11:8614600-8616400	Active TSS	HUES64 Cell Line	embryonic stem cell
5	chr11:8614600-8616400	Active TSS	iPS-20b Cell Line	embryonic stem cell
6	chr11:8614800-8615400	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr11:8614800-8615400	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
8	chr11:8614800-8615800	Active TSS	Brain Anterior Caudate	brain
9	chr11:8614800-8615800	Active TSS	Duodenum Mucosa	Duodenum
10	chr11:8614800-8615800	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
11	chr11:8614800-8615800	Active TSS	Stomach Smooth Muscle	stomach
12	chr11:8614800-8615800	Active TSS	HepG2	liver
13	chr11:8614800-8616000	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
14	chr11:8614800-8616000	Active TSS	Hela-S3	cervix
15	chr11:8614800-8616200	Active TSS	ES-I3 Cell Line	embryonic stem cell
16	chr11:8614800-8616200	Active TSS	iPS-15b Cell Line	embryonic stem cell
17	chr11:8614800-8616200	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
18	chr11:8614800-8616200	Flanking Active TSS	Ovary	ovary
19	chr11:8614800-8616400	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
20	chr11:8614800-8616400	Bivalent/Poised TSS	Duodenum Smooth Muscle	Duodenum
21	chr11:8614800-8616600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
22	chr11:8615000-8615400	Flanking Active TSS	Brain Germinal Matrix	brain
23	chr11:8615000-8615400	Active TSS	Left Ventricle	heart
24	chr11:8615000-8615800	Bivalent/Poised TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
25	chr11:8615000-8615800	Active TSS	Skeletal Muscle Male	skeletal muscle
26	chr11:8615000-8615800	Active TSS	Thymus	Thymus
27	chr11:8615000-8615800	Active TSS	NH-A	brain
28	chr11:8615000-8616000	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr11:8615000-8616000	Active TSS	iPS-18 Cell Line	embryonic stem cell
30	chr11:8615000-8616000	Bivalent/Poised TSS	Brain Dorsolateral Prefrontal Cortex	brain
31	chr11:8615000-8616000	Active TSS	NHLF	lung
32	chr11:8615000-8616200	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr11:8615000-8616200	Active TSS	HUES6 Cell Line	embryonic stem cell
34	chr11:8615000-8616200	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr11:8615000-8616200	Active TSS	Fetal Kidney	kidney
36	chr11:8615000-8616200	Active TSS	Pancreatic Islets	Pancreatic Islet
37	chr11:8615000-8616400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
38	chr11:8615000-8616400	Active TSS	H9 Cell Line	embryonic stem cell
39	chr11:8615000-8616400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr11:8615000-8616400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr11:8615000-8616400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
42	chr11:8615000-8616400	Flanking Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr11:8615000-8616400	Active TSS	Fetal Intestine Large	intestine
44	chr11:8615000-8616400	Active TSS	Rectal Mucosa Donor 29	rectum
45	chr11:8615000-8616400	Active TSS	Right Atrium	heart
46	chr11:8615000-8616400	Active TSS	Right Ventricle	heart
47	chr11:8615200-8615400	Flanking Active TSS	Primary B cells from cord blood	blood
48	chr11:8615200-8615400	Flanking Active TSS	Primary B cells from peripheral blood	blood
49	chr11:8615200-8615400	Bivalent Enhancer	Primary T regulatory cells fromperipheralblood	blood
50	chr11:8615200-8615400	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links