Variant report

Variant	rs17489170
Chromosome Location	chr12:40429155-40429156
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	chr12:40427544..40429854-chr12:40484526..40486904,2	MCF-7	breast:
2	chr12:40428243..40430877-chr12:40432067..40435027,3	K562	blood:

Extended variants
information (count: 152 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:148)

rs_ID	r²[population]
rs12368785	1.00[JPT][hapmap]
rs12368891	1.00[JPT][hapmap]
rs13377779	1.00[AMR][1000 genomes]
rs17442206	1.00[JPT][hapmap]
rs17442297	1.00[JPT][hapmap]
rs17442742	1.00[JPT][hapmap]
rs17442980	1.00[JPT][hapmap]
rs17443178	1.00[JPT][hapmap]
rs17443185	1.00[JPT][hapmap]
rs17443206	1.00[JPT][hapmap]
rs17443366	1.00[JPT][hapmap]
rs17443380	1.00[JPT][hapmap]
rs17443387	1.00[JPT][hapmap]
rs17458093	1.00[JPT][hapmap]
rs17458121	1.00[JPT][hapmap]
rs17458202	1.00[JPT][hapmap]
rs17458396	1.00[JPT][hapmap]
rs17458417	1.00[JPT][hapmap]
rs17458487	1.00[JPT][hapmap]
rs17458528	1.00[JPT][hapmap]
rs17458836	1.00[JPT][hapmap]
rs17461337	1.00[JPT][hapmap]
rs17465737	1.00[JPT][hapmap]
rs17465751	1.00[JPT][hapmap]
rs17483857	1.00[JPT][hapmap]
rs17483996	1.00[JPT][hapmap]
rs17489218	1.00[JPT][hapmap]
rs17489225	1.00[JPT][hapmap]
rs17489246	1.00[JPT][hapmap]
rs17489253	1.00[JPT][hapmap]
rs17489267	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs17489295	1.00[AMR][1000 genomes]
rs17489365	1.00[JPT][hapmap]
rs17489410	1.00[JPT][hapmap]
rs17489417	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs17489466	1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17489501	1.00[JPT][hapmap]
rs17489522	1.00[AMR][1000 genomes]
rs17489583	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs17489590	1.00[JPT][hapmap]
rs17489597	1.00[JPT][hapmap]
rs17489638	1.00[JPT][hapmap]
rs17489869	1.00[JPT][hapmap]
rs17490006	1.00[JPT][hapmap]
rs17490334	1.00[JPT][hapmap]
rs17490341	1.00[JPT][hapmap]
rs17490599	1.00[JPT][hapmap]
rs17518057	1.00[JPT][hapmap]
rs17518071	1.00[JPT][hapmap]
rs17518141	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs17518148	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs17518155	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs17518190	0.88[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs17518204	1.00[JPT][hapmap]
rs17518232	1.00[JPT][hapmap]
rs17518322	1.00[AMR][1000 genomes]
rs17518329	1.00[AMR][1000 genomes]
rs17518343	1.00[JPT][hapmap]
rs17518357	1.00[AMR][1000 genomes]
rs17518392	1.00[AMR][1000 genomes]
rs17518413	1.00[JPT][hapmap]
rs17518420	1.00[JPT][hapmap]
rs17518427	1.00[AMR][1000 genomes]
rs17518532	1.00[JPT][hapmap]
rs17518910	1.00[JPT][hapmap]
rs17518965	0.83[AFR][1000 genomes]
rs28365178	1.00[JPT][hapmap]
rs28365191	1.00[JPT][hapmap]
rs28365203	1.00[JPT][hapmap]
rs28365211	1.00[JPT][hapmap]
rs28365682	1.00[JPT][hapmap]
rs28365690	1.00[JPT][hapmap]
rs28370601	1.00[JPT][hapmap]
rs28370605	1.00[JPT][hapmap]
rs28370608	1.00[JPT][hapmap]
rs28370616	1.00[JPT][hapmap]
rs28370643	1.00[JPT][hapmap]
rs28370649	1.00[JPT][hapmap]
rs28370652	1.00[JPT][hapmap]
rs28370655	1.00[JPT][hapmap]
rs28370658	1.00[JPT][hapmap]
rs28370665	1.00[JPT][hapmap]
rs28370670	1.00[JPT][hapmap]
rs28370672	1.00[JPT][hapmap]
rs28370673	1.00[JPT][hapmap]
rs28370682	1.00[JPT][hapmap]
rs28370686	1.00[JPT][hapmap]
rs28370687	1.00[AMR][1000 genomes]
rs28370690	1.00[JPT][hapmap]
rs28370691	1.00[AMR][1000 genomes]
rs28370692	1.00[JPT][hapmap]
rs28370696	1.00[JPT][hapmap]
rs28370700	1.00[JPT][hapmap]
rs28370707	1.00[JPT][hapmap]
rs28370710	1.00[AMR][1000 genomes]
rs28370715	1.00[AMR][1000 genomes]
rs28370716	1.00[AMR][1000 genomes]
rs28370718	1.00[JPT][hapmap]
rs28370731	1.00[JPT][hapmap]
rs28370737	1.00[JPT][hapmap]
rs28370744	1.00[JPT][hapmap]
rs28370749	1.00[AMR][1000 genomes]
rs28370750	1.00[JPT][hapmap]
rs28370751	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs28370755	1.00[JPT][hapmap]
rs28370760	1.00[AMR][1000 genomes]
rs28370763	1.00[AMR][1000 genomes]
rs28370764	1.00[JPT][hapmap]
rs28370765	1.00[JPT][hapmap]
rs28370767	1.00[JPT][hapmap]
rs28370768	1.00[JPT][hapmap]
rs28370769	1.00[AMR][1000 genomes]
rs28370771	1.00[JPT][hapmap]
rs28370772	1.00[JPT][hapmap]
rs28370775	1.00[AMR][1000 genomes]
rs28370776	1.00[JPT][hapmap]
rs28370779	1.00[JPT][hapmap]
rs28370781	1.00[AMR][1000 genomes]
rs28370782	1.00[AMR][1000 genomes]
rs28370787	1.00[JPT][hapmap];1.00[AMR][1000 genomes]
rs28370788	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28370789	1.00[AMR][1000 genomes]
rs28370791	1.00[AMR][1000 genomes]
rs28370793	1.00[JPT][hapmap]
rs28370796	1.00[JPT][hapmap]
rs28370800	1.00[JPT][hapmap]
rs28370806	1.00[JPT][hapmap]
rs28370808	1.00[JPT][hapmap]
rs28370813	1.00[JPT][hapmap]
rs28370818	1.00[JPT][hapmap]
rs28370823	1.00[JPT][hapmap]
rs28370826	1.00[JPT][hapmap]
rs28740215	1.00[AMR][1000 genomes]
rs28740216	1.00[AMR][1000 genomes]
rs4405389	1.00[JPT][hapmap]
rs56193998	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57438184	0.83[AFR][1000 genomes]
rs57966079	1.00[AMR][1000 genomes]
rs58812092	1.00[AMR][1000 genomes]
rs59404097	1.00[AMR][1000 genomes]
rs59663144	1.00[AMR][1000 genomes]
rs60755503	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs61339615	1.00[AMR][1000 genomes]
rs74088130	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74088192	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs74089003	1.00[AFR][1000 genomes]
rs74089321	1.00[AMR][1000 genomes]
rs74091033	1.00[AFR][1000 genomes];1.00[AMR][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	nsv1046428	chr12:40226283-40439843	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv541481	chr12:40226283-40439843	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
3	nsv558596	chr12:40413698-40591117	Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv558597	chr12:40414631-40442892	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40394400-40448400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr12:40405400-40445200	Weak transcription	K562	blood
3	chr12:40416600-40441800	Weak transcription	Ovary	ovary
4	chr12:40419000-40447600	Weak transcription	Hela-S3	cervix
5	chr12:40421600-40453400	Weak transcription	Left Ventricle	heart
6	chr12:40425400-40429200	Enhancers	HUES64 Cell Line	embryonic stem cell
7	chr12:40425600-40429800	Enhancers	Cortex derived primary cultured neurospheres	brain
8	chr12:40426400-40452800	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr12:40427000-40429200	Enhancers	HUES48 Cell Line	embryonic stem cell
10	chr12:40427800-40429200	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
11	chr12:40427800-40430000	Enhancers	Pancreatic Islets	Pancreatic Islet
12	chr12:40428000-40429400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr12:40428000-40429600	Enhancers	A549	lung
14	chr12:40428000-40436400	Weak transcription	Fetal Intestine Large	intestine
15	chr12:40428000-40452600	Weak transcription	Fetal Intestine Small	intestine
16	chr12:40428800-40429400	Enhancers	Brain Cingulate Gyrus	brain
17	chr12:40429000-40433400	Weak transcription	Fetal Lung	lung

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