Variant report

Variant	rs11202609
Chromosome Location	chr10:89733169-89733170
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	chr10:89623124..89624874-chr10:89731308..89733692,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000171862	Chromatin interaction
ENSG00000227268	Chromatin interaction

Extended variants
information (count: 19 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10082505	1.00[EUR][1000 genomes]
rs10887764	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12245922	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12254375	1.00[EUR][1000 genomes]
rs12260220	1.00[EUR][1000 genomes]
rs12266639	1.00[EUR][1000 genomes]
rs12267296	1.00[EUR][1000 genomes]
rs12267986	1.00[EUR][1000 genomes]
rs17107001	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17107461	0.81[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs35854253	0.96[ASN][1000 genomes]
rs4258291	1.00[EUR][1000 genomes]
rs59563535	1.00[EUR][1000 genomes]
rs60782486	1.00[EUR][1000 genomes]
rs73336617	1.00[EUR][1000 genomes]
rs73336632	1.00[EUR][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	esv1793518	chr10:89625582-89733420	Weak transcription Strong transcription Enhancers Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	esv1798260	chr10:89625582-89733420	Weak transcription Genic enhancers Strong transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
3	nsv551837	chr10:89707265-89777788	Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:89696600-89734600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr10:89708800-89734400	Weak transcription	Aorta	Aorta
3	chr10:89713000-89733200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr10:89714600-89738600	Weak transcription	NHEK	skin
5	chr10:89721800-89735800	Weak transcription	A549	lung
6	chr10:89722000-89736000	Weak transcription	NHLF	lung
7	chr10:89724000-89733200	Weak transcription	HSMM	muscle
8	chr10:89724000-89739000	Weak transcription	Adipose Nuclei	Adipose
9	chr10:89724200-89738600	Weak transcription	HMEC	breast
10	chr10:89724200-89738800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr10:89724400-89733400	Weak transcription	Hela-S3	cervix
12	chr10:89724400-89738200	Weak transcription	Primary hematopoietic stem cells	blood
13	chr10:89724400-89738600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
14	chr10:89724800-89734600	Weak transcription	NH-A	brain
15	chr10:89724800-89734800	Weak transcription	Primary B cells from cord blood	blood
16	chr10:89724800-89736200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr10:89724800-89738400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
18	chr10:89724800-89739400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr10:89725000-89734600	Weak transcription	GM12878-XiMat	blood
20	chr10:89725800-89735600	Weak transcription	Liver	Liver
21	chr10:89726000-89735600	Weak transcription	Primary monocytes fromperipheralblood	blood
22	chr10:89726400-89736200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
23	chr10:89726600-89733600	Weak transcription	HUVEC	blood vessel
24	chr10:89726600-89734600	Weak transcription	Primary B cells from peripheral blood	blood
25	chr10:89726600-89739400	Weak transcription	Fetal Thymus	thymus
26	chr10:89727800-89734600	Weak transcription	Primary neutrophils fromperipheralblood	blood
27	chr10:89729000-89733600	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr10:89729200-89733200	Enhancers	HUES64 Cell Line	embryonic stem cell
29	chr10:89730200-89734200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr10:89730600-89735000	Weak transcription	Pancreatic Islets	Pancreatic Islet
31	chr10:89731200-89736800	Enhancers	iPS-15b Cell Line	embryonic stem cell
32	chr10:89732200-89733200	Enhancers	iPS-20b Cell Line	embryonic stem cell
33	chr10:89732400-89733200	Enhancers	Primary hematopoietic stem cells short term culture	blood
34	chr10:89732400-89733400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
35	chr10:89732400-89733800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
36	chr10:89732400-89733800	Enhancers	NHDF-Ad	bronchial
37	chr10:89732400-89734000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
38	chr10:89732400-89734000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
39	chr10:89732600-89733200	Enhancers	HUES6 Cell Line	embryonic stem cell
40	chr10:89732600-89733800	Enhancers	Muscle Satellite Cultured Cells	--
41	chr10:89732800-89734000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
42	chr10:89732800-89734400	Weak transcription	H1 Cell Line	embryonic stem cell
43	chr10:89732800-89738200	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr10:89733000-89733400	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
45	chr10:89733000-89733800	Enhancers	Osteobl	bone
46	chr10:89733000-89734800	Flanking Active TSS	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links