Variant report

Variant	rs1333689
Chromosome Location	chr10:116390475-116390476
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:116380101..116382698-chr10:116387153..116390968,3	MCF-7	breast:
2	chr10:116385913..116388731-chr10:116390266..116392434,3	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10885587	0.90[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10885588	0.99[ASN][1000 genomes]
rs10885592	0.80[CHD][hapmap]
rs11196805	0.89[CEU][hapmap];0.90[CHB][hapmap];0.86[ASN][1000 genomes]
rs11196811	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.82[GIH][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs11196812	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs11196815	0.99[ASN][1000 genomes]
rs11196817	0.99[ASN][1000 genomes]
rs11196818	0.90[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.99[ASN][1000 genomes]
rs11196820	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.99[ASN][1000 genomes]
rs12161653	0.81[CHB][hapmap]
rs12219039	0.99[ASN][1000 genomes]
rs12571734	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap];0.99[ASN][1000 genomes]
rs12573191	0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs17092218	0.80[CHD][hapmap]
rs17092237	0.80[CHD][hapmap]
rs2497668	0.90[CEU][hapmap];0.91[CHB][hapmap];0.86[ASN][1000 genomes]
rs2497681	0.80[CEU][hapmap];0.83[CHD][hapmap];0.82[ASN][1000 genomes]
rs2497682	0.82[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037308	chr10:116141946-116519765	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
2	nsv540780	chr10:116141946-116519765	Enhancers Genic enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	20 gene(s)	inside rSNPs	diseases
3	nsv949138	chr10:116311531-116874477	Weak transcription Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
4	nsv1038050	chr10:116315109-116895719	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
5	nsv533027	chr10:116344641-116856352	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:116378800-116391200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:116383200-116391200	Weak transcription	Lung	lung
3	chr10:116384000-116391000	Weak transcription	Fetal Intestine Small	intestine
4	chr10:116384200-116390800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
5	chr10:116385200-116391000	Weak transcription	Stomach Mucosa	stomach
6	chr10:116385200-116391200	Weak transcription	Sigmoid Colon	Sigmoid Colon
7	chr10:116385400-116390800	Weak transcription	Primary hematopoietic stem cells	blood
8	chr10:116385400-116391000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr10:116385600-116390800	Weak transcription	Rectal Mucosa Donor 31	rectum
10	chr10:116386200-116391000	Weak transcription	Gastric	stomach
11	chr10:116386800-116391000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr10:116388200-116392600	Active TSS	Right Ventricle	heart
13	chr10:116388800-116390800	Enhancers	Breast Myoepithelial Primary Cells	Breast
14	chr10:116389200-116391000	Enhancers	HepG2	liver
15	chr10:116389600-116390600	Enhancers	A549	lung
16	chr10:116389600-116390600	Enhancers	HMEC	breast
17	chr10:116389600-116390800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr10:116389600-116391000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
19	chr10:116389600-116391000	Weak transcription	Pancreas	Pancrea
20	chr10:116389600-116391000	Enhancers	NHEK	skin
21	chr10:116389600-116391200	Active TSS	Left Ventricle	heart
22	chr10:116389600-116392600	Active TSS	Right Atrium	heart
23	chr10:116389800-116390800	Enhancers	Adipose Nuclei	Adipose
24	chr10:116389800-116390800	Weak transcription	Fetal Muscle Leg	muscle
25	chr10:116389800-116391000	Bivalent Enhancer	Brain Angular Gyrus	brain
26	chr10:116389800-116391000	Weak transcription	Esophagus	oesophagus
27	chr10:116389800-116391000	Bivalent/Poised TSS	Skeletal Muscle Female	skeletal muscle
28	chr10:116390000-116390800	Active TSS	ES-I3 Cell Line	embryonic stem cell
29	chr10:116390000-116390800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
30	chr10:116390000-116390800	Active TSS	Liver	Liver
31	chr10:116390000-116390800	Bivalent/Poised TSS	Fetal Brain Female	brain
32	chr10:116390000-116390800	Active TSS	Psoas Muscle	Psoas
33	chr10:116390000-116390800	Bivalent/Poised TSS	Skeletal Muscle Male	skeletal muscle
34	chr10:116390000-116391200	Flanking Active TSS	HSMM	muscle
35	chr10:116390000-116392200	Active TSS	Fetal Heart	heart
36	chr10:116390200-116390600	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
37	chr10:116390200-116390800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
38	chr10:116390200-116391000	Enhancers	Cortex derived primary cultured neurospheres	brain
39	chr10:116390200-116392400	Weak transcription	Hela-S3	cervix
40	chr10:116390400-116390600	Flanking Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
41	chr10:116390400-116390600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
42	chr10:116390400-116390600	Flanking Active TSS	HSMMtube	muscle
43	chr10:116390400-116390800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr10:116390400-116390800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr10:116390400-116390800	Enhancers	HUVEC	blood vessel
46	chr10:116390400-116390800	Enhancers	NHLF	lung
47	chr10:116390400-116391000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr10:116390400-116391000	Active TSS	Stomach Smooth Muscle	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links