Variant report

Variant	rs9917366
Chromosome Location	chr2:233915793-233915794
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	chr2:233914078..233917204-chr2:233917220..233919359,3	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10211511	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12694923	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs13017176	0.98[AFR][1000 genomes];0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13017623	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13391656	0.82[ASN][1000 genomes]
rs13392069	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13401226	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs13408428	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs13408980	0.88[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2344913	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28574597	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34177313	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34383725	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34513284	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34779565	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs35213087	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35237010	0.82[ASN][1000 genomes]
rs35487055	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4073603	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4405750	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4439944	0.81[CEU][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs56279626	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62194574	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6759511	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9917223	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9917354	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9917368	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005123	chr2:233227729-233920152	Enhancers Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
2	nsv536173	chr2:233227729-233920152	Bivalent Enhancer Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	58 gene(s)	inside rSNPs	diseases
3	nsv876009	chr2:233799400-233996429	Enhancers Genic enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv876012	chr2:233899377-233996429	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS Strong transcription ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:30 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:233909400-233915800	Weak transcription	Right Atrium	heart
2	chr2:233913400-233916000	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr2:233913800-233916000	Enhancers	H1 Cell Line	embryonic stem cell
4	chr2:233913800-233916000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr2:233914000-233916000	Enhancers	ES-I3 Cell Line	embryonic stem cell
6	chr2:233914000-233916200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
7	chr2:233914200-233916000	Enhancers	H9 Cell Line	embryonic stem cell
8	chr2:233914200-233918600	Weak transcription	Brain Inferior Temporal Lobe	brain
9	chr2:233914200-233919200	Weak transcription	Muscle Satellite Cultured Cells	--
10	chr2:233914400-233916000	Enhancers	HUES6 Cell Line	embryonic stem cell
11	chr2:233914400-233916000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
12	chr2:233914400-233918600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr2:233914400-233918800	Weak transcription	HMEC	breast
14	chr2:233914400-233926600	Weak transcription	HSMMtube	muscle
15	chr2:233914600-233915800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
16	chr2:233914600-233916000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
17	chr2:233914600-233918400	Weak transcription	Fetal Thymus	thymus
18	chr2:233914600-233919200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr2:233914800-233918600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
20	chr2:233915000-233916200	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr2:233915000-233918400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
22	chr2:233915000-233918600	Weak transcription	Brain Anterior Caudate	brain
23	chr2:233915600-233915800	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr2:233915600-233915800	Flanking Active TSS	HUES64 Cell Line	embryonic stem cell
25	chr2:233915600-233916000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
26	chr2:233915600-233916000	Flanking Active TSS	iPS-20b Cell Line	embryonic stem cell
27	chr2:233915600-233916200	Flanking Active TSS	iPS-15b Cell Line	embryonic stem cell
28	chr2:233915600-233916400	Weak transcription	Spleen	Spleen
29	chr2:233915600-233916600	Enhancers	Esophagus	oesophagus
30	chr2:233915600-233917200	Enhancers	NHEK	skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links