Variant report

Variant	rs17525659
Chromosome Location	chr10:97006855-97006856
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:8)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:8 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr10:97004316..97007342-chr10:97122955..97125277,3	MCF-7	breast:
2	chr10:97005723..97007113-chr10:97122606..97124048,9	MCF-7	breast:
3	chr10:97003964..97007161-chr10:97008382..97011315,3	K562	blood:
4	chr10:97004348..97006901-chr10:97009361..97013623,3	MCF-7	breast:
5	chr10:97006166..97007290-chr10:97122573..97124010,12	MCF-7	breast:
6	chr10:97002381..97008883-chr10:97045266..97052392,13	MCF-7	breast:
7	chr10:97004085..97006971-chr10:97024831..97027710,2	K562	blood:
8	chr10:97005988..97007143-chr10:97122763..97123733,9	K562	blood:

No data

Variant related genes	Relation type
ENSG00000107438	Chromatin interaction

Extended variants
information (count: 93 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:90)

rs_ID	r²[population]
rs10509681	1.00[ASN][1000 genomes]
rs11188148	1.00[ASN][1000 genomes]
rs11188153	1.00[ASN][1000 genomes]
rs11188154	1.00[ASN][1000 genomes]
rs11572064	1.00[ASN][1000 genomes]
rs11572080	1.00[ASN][1000 genomes]
rs11572082	1.00[ASN][1000 genomes]
rs11572094	1.00[ASN][1000 genomes]
rs11572107	1.00[ASN][1000 genomes]
rs11572116	1.00[ASN][1000 genomes]
rs11572128	1.00[ASN][1000 genomes]
rs11572150	1.00[ASN][1000 genomes]
rs11572168	1.00[ASN][1000 genomes]
rs11572169	1.00[ASN][1000 genomes]
rs11572174	1.00[ASN][1000 genomes]
rs11591385	1.00[ASN][1000 genomes]
rs11593816	1.00[ASN][1000 genomes]
rs11598823	1.00[ASN][1000 genomes]
rs12761249	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12761315	1.00[ASN][1000 genomes]
rs12762602	1.00[ASN][1000 genomes]
rs12762652	0.86[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs12763201	1.00[ASN][1000 genomes]
rs12763939	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12766965	1.00[ASN][1000 genomes]
rs12774244	1.00[ASN][1000 genomes]
rs12777852	0.85[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs12778481	1.00[ASN][1000 genomes]
rs12779007	1.00[ASN][1000 genomes]
rs12779339	1.00[ASN][1000 genomes]
rs12780333	1.00[ASN][1000 genomes]
rs12784371	1.00[ASN][1000 genomes]
rs17452671	0.85[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17452714	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17453533	0.92[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17523627	1.00[ASN][1000 genomes]
rs17524348	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34031095	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34119978	0.87[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34246390	0.86[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs34254643	1.00[ASN][1000 genomes]
rs34320910	1.00[ASN][1000 genomes]
rs34409900	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34462937	1.00[ASN][1000 genomes]
rs34729632	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34883883	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34949438	1.00[ASN][1000 genomes]
rs35203700	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35213500	1.00[ASN][1000 genomes]
rs35238981	1.00[ASN][1000 genomes]
rs35432490	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35461306	1.00[ASN][1000 genomes]
rs35598837	1.00[ASN][1000 genomes]
rs35883122	1.00[ASN][1000 genomes]
rs35955220	1.00[ASN][1000 genomes]
rs35998772	1.00[ASN][1000 genomes]
rs36037322	1.00[ASN][1000 genomes]
rs36042065	1.00[ASN][1000 genomes]
rs36168663	1.00[ASN][1000 genomes]
rs45457395	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45523137	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45535939	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs45546031	1.00[ASN][1000 genomes]
rs45601238	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs483239	1.00[ASN][1000 genomes]
rs507728	1.00[ASN][1000 genomes]
rs56028148	1.00[ASN][1000 genomes]
rs570849	1.00[ASN][1000 genomes]
rs595924	1.00[ASN][1000 genomes]
rs601746	1.00[ASN][1000 genomes]
rs623544	1.00[ASN][1000 genomes]
rs639937	1.00[ASN][1000 genomes]
rs659309	1.00[ASN][1000 genomes]
rs66648066	1.00[ASN][1000 genomes]
rs66816038	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs670565	1.00[ASN][1000 genomes]
rs67403627	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67728892	1.00[ASN][1000 genomes]
rs67737822	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67851687	1.00[ASN][1000 genomes]
rs67918795	1.00[ASN][1000 genomes]
rs682349	1.00[ASN][1000 genomes]
rs684203	1.00[ASN][1000 genomes]
rs686705	1.00[ASN][1000 genomes]
rs701889	1.00[ASN][1000 genomes]
rs7082506	1.00[ASN][1000 genomes]
rs7099702	1.00[ASN][1000 genomes]
rs71482344	1.00[ASN][1000 genomes]
rs71505737	1.00[ASN][1000 genomes]
rs72820645	1.00[ASN][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	nsv497859	chr10:96058024-97027747	Strong transcription Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
2	nsv529726	chr10:96632494-97106315	Strong transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	esv15160	chr10:96942869-97074756	Bivalent Enhancer Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:92 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:96991000-97007600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:96991000-97020400	Weak transcription	Fetal Muscle Leg	muscle
3	chr10:96991000-97024000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr10:96991400-97019000	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
5	chr10:96992200-97009000	Strong transcription	Liver	Liver
6	chr10:96996400-97016000	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr10:96996600-97007000	Strong transcription	Rectal Mucosa Donor 29	rectum
8	chr10:96996800-97009400	Strong transcription	Sigmoid Colon	Sigmoid Colon
9	chr10:96998200-97009400	Weak transcription	Small Intestine	intestine
10	chr10:96998400-97030200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr10:96999600-97008600	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
12	chr10:96999800-97009000	Strong transcription	Primary B cells from cord blood	blood
13	chr10:97000000-97009400	Strong transcription	Colonic Mucosa	Colon
14	chr10:97000400-97024400	Weak transcription	Fetal Kidney	kidney
15	chr10:97001600-97008800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
16	chr10:97001800-97007600	Strong transcription	Lung	lung
17	chr10:97002600-97007000	Genic enhancers	Skeletal Muscle Male	skeletal muscle
18	chr10:97004000-97007000	Strong transcription	Esophagus	oesophagus
19	chr10:97004000-97007000	Enhancers	Fetal Thymus	thymus
20	chr10:97004000-97007400	Strong transcription	Spleen	Spleen
21	chr10:97004000-97009200	Strong transcription	Fetal Lung	lung
22	chr10:97004400-97008800	Strong transcription	Fetal Intestine Large	intestine
23	chr10:97004800-97009800	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
24	chr10:97005000-97007200	Genic enhancers	Primary B cells from peripheral blood	blood
25	chr10:97005000-97007800	Genic enhancers	Duodenum Mucosa	Duodenum
26	chr10:97005600-97008000	Genic enhancers	Rectal Smooth Muscle	rectum
27	chr10:97005600-97011000	Genic enhancers	Breast Myoepithelial Primary Cells	Breast
28	chr10:97005600-97011800	Genic enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr10:97005800-97007600	Genic enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr10:97005800-97008600	Weak transcription	Psoas Muscle	Psoas
31	chr10:97006200-97007000	Genic enhancers	Fetal Heart	heart
32	chr10:97006200-97007600	Weak transcription	Aorta	Aorta
33	chr10:97006200-97008000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
34	chr10:97006200-97008400	Enhancers	Stomach Smooth Muscle	stomach
35	chr10:97006200-97008800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
36	chr10:97006200-97008800	Weak transcription	Fetal Muscle Trunk	muscle
37	chr10:97006200-97011400	Genic enhancers	HUES6 Cell Line	embryonic stem cell
38	chr10:97006200-97017600	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr10:97006400-97007000	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr10:97006400-97007000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
41	chr10:97006400-97007000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr10:97006400-97007000	Genic enhancers	Stomach Mucosa	stomach
43	chr10:97006400-97007200	Genic enhancers	Fetal Stomach	stomach
44	chr10:97006400-97007200	Genic enhancers	Left Ventricle	heart
45	chr10:97006400-97007200	Genic enhancers	HMEC	breast
46	chr10:97006400-97007400	Genic enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
47	chr10:97006400-97007400	Genic enhancers	NHEK	skin
48	chr10:97006400-97007800	Enhancers	Muscle Satellite Cultured Cells	--
49	chr10:97006400-97007800	Enhancers	Duodenum Smooth Muscle	Duodenum
50	chr10:97006400-97007800	Genic enhancers	A549	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links