Variant report

Variant	rs10180863
Chromosome Location	chr2:205530797-205530798
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:205529750..205532118-chr2:205534862..205537646,2	MCF-7	breast:
2	chr2:205528626..205531544-chr2:205538166..205540869,3	MCF-7	breast:

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10168631	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10174665	1.00[EUR][1000 genomes]
rs10179131	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10184096	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10190242	1.00[EUR][1000 genomes]
rs10199785	1.00[AMR][1000 genomes]
rs10199977	1.00[AMR][1000 genomes]
rs10207338	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11887599	1.00[ASN][1000 genomes]
rs12328281	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13387065	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13393921	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13396823	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13409407	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13410864	1.00[AMR][1000 genomes]
rs13412778	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13413975	1.00[AMR][1000 genomes]
rs13417497	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13432594	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17595379	1.00[EUR][1000 genomes]
rs28538804	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28751884	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs34575634	1.00[EUR][1000 genomes]
rs60899945	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6718622	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6755557	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73059097	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73059099	1.00[EUR][1000 genomes]
rs7591676	1.00[EUR][1000 genomes]
rs9653255	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9973966	0.81[AFR][1000 genomes];1.00[AMR][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	nsv998485	chr2:205407813-206184006	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv536122	chr2:205407813-206184006	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv875722	chr2:205462099-205572718	Weak transcription Enhancers ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv875723	chr2:205489653-205612846	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Genic enhancers Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1010210	chr2:205489653-206076013	Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:53 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:205520800-205542800	Weak transcription	Psoas Muscle	Psoas
2	chr2:205521000-205546200	Weak transcription	Aorta	Aorta
3	chr2:205527800-205531400	Enhancers	HSMM	muscle
4	chr2:205527800-205531800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr2:205527800-205533200	Enhancers	HSMMtube	muscle
6	chr2:205528000-205546200	Weak transcription	Pancreas	Pancrea
7	chr2:205528400-205532800	Weak transcription	Gastric	stomach
8	chr2:205528600-205531000	Enhancers	NHLF	lung
9	chr2:205528600-205531200	Enhancers	Colon Smooth Muscle	Colon
10	chr2:205528800-205530800	Enhancers	Hela-S3	cervix
11	chr2:205528800-205531000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr2:205528800-205531000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr2:205529000-205530800	Enhancers	HUVEC	blood vessel
14	chr2:205529000-205531000	Enhancers	Osteobl	bone
15	chr2:205529000-205531400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:205529000-205531400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr2:205529000-205534400	Weak transcription	Stomach Mucosa	stomach
18	chr2:205529200-205530800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
19	chr2:205529200-205530800	Enhancers	HepG2	liver
20	chr2:205529200-205531000	Enhancers	HMEC	breast
21	chr2:205529200-205531000	Enhancers	NH-A	brain
22	chr2:205529400-205530800	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr2:205529400-205530800	Enhancers	Fetal Heart	heart
24	chr2:205529400-205531800	Enhancers	Fetal Kidney	kidney
25	chr2:205529800-205530800	Flanking Active TSS	Muscle Satellite Cultured Cells	--
26	chr2:205529800-205531000	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
27	chr2:205530000-205530800	Enhancers	Ovary	ovary
28	chr2:205530000-205530800	Enhancers	Skeletal Muscle Female	skeletal muscle
29	chr2:205530000-205531200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr2:205530000-205531200	Enhancers	Rectal Smooth Muscle	rectum
31	chr2:205530000-205531600	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
32	chr2:205530200-205532200	Weak transcription	Liver	Liver
33	chr2:205530200-205532800	Weak transcription	Fetal Intestine Large	intestine
34	chr2:205530200-205535000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr2:205530200-205535000	Weak transcription	Lung	lung
36	chr2:205530200-205535400	Weak transcription	HUES64 Cell Line	embryonic stem cell
37	chr2:205530400-205530800	Enhancers	NHEK	skin
38	chr2:205530400-205531000	Enhancers	Stomach Smooth Muscle	stomach
39	chr2:205530400-205531800	Enhancers	NHDF-Ad	bronchial
40	chr2:205530400-205532200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
41	chr2:205530400-205532200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr2:205530400-205534200	Weak transcription	Fetal Lung	lung
43	chr2:205530400-205535000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
44	chr2:205530400-205535000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
45	chr2:205530400-205535000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr2:205530400-205535200	Weak transcription	HUES48 Cell Line	embryonic stem cell
47	chr2:205530400-205535200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
48	chr2:205530400-205535400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
49	chr2:205530400-205535600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
50	chr2:205530400-205538000	Weak transcription	iPS-15b Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links