Variant report

Variant	rs17666825
Chromosome Location	chr8:89255107-89255108
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr8:89254721..89256810-chr8:89272471..89275447,2	MCF-7	breast:

Extended variants
information (count: 21 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs17666351	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs17666560	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17722705	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17723163	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17728649	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28904602	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28904630	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs55799901	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs57187913	0.84[EUR][1000 genomes]
rs57837867	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs59592564	0.89[AMR][1000 genomes]
rs6993842	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs73692207	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73692208	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs73694276	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7835443	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][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	nsv1029898	chr8:88837956-89606641	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
2	nsv1030028	chr8:89060085-89733470	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv1019111	chr8:89186908-89475460	Weak transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv831386	chr8:89209788-89403546	Enhancers Genic enhancers Active TSS Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv891170	chr8:89227970-89298199	Flanking Active TSS Enhancers Weak transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:37 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:89239000-89260800	Weak transcription	Aorta	Aorta
2	chr8:89246000-89255400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr8:89247400-89255600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr8:89250000-89259600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr8:89252600-89255400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr8:89252600-89255600	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr8:89252600-89255600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr8:89252600-89257600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr8:89252600-89264400	Weak transcription	Fetal Heart	heart
10	chr8:89252800-89255600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr8:89254400-89255200	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
12	chr8:89254400-89255200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
13	chr8:89254400-89255400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr8:89254400-89255400	Enhancers	Pancreatic Islets	Pancreatic Islet
15	chr8:89254400-89256600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr8:89254400-89256600	Enhancers	Osteobl	bone
17	chr8:89254600-89255600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr8:89254600-89255800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr8:89254600-89255800	Flanking Active TSS	NHDF-Ad	bronchial
20	chr8:89254600-89256000	Enhancers	Muscle Satellite Cultured Cells	--
21	chr8:89254600-89256000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr8:89254600-89256200	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr8:89254600-89256200	Enhancers	Colon Smooth Muscle	Colon
24	chr8:89254600-89256600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
25	chr8:89254600-89256600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
26	chr8:89254600-89256600	Enhancers	NH-A	brain
27	chr8:89254600-89257200	Enhancers	HUES6 Cell Line	embryonic stem cell
28	chr8:89254600-89257400	Enhancers	iPS-18 Cell Line	embryonic stem cell
29	chr8:89254800-89255200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr8:89254800-89255400	Enhancers	Fetal Lung	lung
31	chr8:89254800-89256800	Enhancers	HUES48 Cell Line	embryonic stem cell
32	chr8:89254800-89257200	Enhancers	HUES64 Cell Line	embryonic stem cell
33	chr8:89254800-89257200	Enhancers	iPS-20b Cell Line	embryonic stem cell
34	chr8:89254800-89257600	Enhancers	iPS-15b Cell Line	embryonic stem cell
35	chr8:89255000-89255200	Enhancers	Hela-S3	cervix
36	chr8:89255000-89255400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
37	chr8:89255000-89257000	Enhancers	Cortex derived primary cultured neurospheres	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links