Variant report

Variant	rs12248877
Chromosome Location	chr10:25414011-25414012
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs10128299	1.00[CEU][hapmap]
rs10508690	1.00[CEU][hapmap]
rs11014436	1.00[CEU][hapmap]
rs11014454	1.00[CEU][hapmap]
rs11014475	1.00[CEU][hapmap]
rs11014480	1.00[CEU][hapmap]
rs1124490	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs12241288	0.86[EUR][1000 genomes]
rs12250636	1.00[CEU][hapmap]
rs12258880	1.00[CEU][hapmap]
rs12261100	0.80[EUR][1000 genomes]
rs12263407	1.00[CEU][hapmap]
rs12265296	1.00[CEU][hapmap]
rs12265550	1.00[CEU][hapmap]
rs1339997	1.00[CEU][hapmap]
rs1388926	0.80[EUR][1000 genomes]
rs1409305	0.86[EUR][1000 genomes]
rs1552772	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs16925193	0.86[EUR][1000 genomes]
rs16925198	1.00[CEU][hapmap];0.86[EUR][1000 genomes]
rs16925493	1.00[CEU][hapmap]
rs16925518	1.00[CEU][hapmap]
rs3808907	1.00[CEU][hapmap];1.00[TSI][hapmap];0.87[EUR][1000 genomes]
rs41279882	0.86[EUR][1000 genomes]
rs41279886	0.86[EUR][1000 genomes]
rs41279890	0.86[EUR][1000 genomes]
rs41279894	0.86[EUR][1000 genomes]
rs41304607	0.93[EUR][1000 genomes]
rs41307498	0.93[EUR][1000 genomes]
rs55788231	0.93[EUR][1000 genomes]
rs57639701	0.86[EUR][1000 genomes]
rs57642444	0.86[EUR][1000 genomes]
rs57695610	0.86[EUR][1000 genomes]
rs58320082	0.86[EUR][1000 genomes]
rs59189661	0.86[EUR][1000 genomes]
rs59876862	0.93[EUR][1000 genomes]
rs60880723	0.86[EUR][1000 genomes]
rs61278248	0.86[EUR][1000 genomes]
rs61585865	0.86[EUR][1000 genomes]
rs6482464	1.00[CEU][hapmap];0.83[TSI][hapmap];0.86[EUR][1000 genomes]
rs7072278	0.93[EUR][1000 genomes]
rs7073171	1.00[CEU][hapmap];1.00[TSI][hapmap];0.93[EUR][1000 genomes]
rs7074602	1.00[CEU][hapmap]
rs7075327	0.86[EUR][1000 genomes]
rs7075587	1.00[CEU][hapmap]
rs7077890	1.00[CEU][hapmap]
rs7080343	1.00[CEU][hapmap]
rs7080371	0.93[EUR][1000 genomes]
rs7083691	0.80[EUR][1000 genomes]
rs7090132	1.00[CEU][hapmap]
rs7099168	1.00[CEU][hapmap];0.83[TSI][hapmap];0.86[EUR][1000 genomes]
rs7101272	1.00[CEU][hapmap]
rs73606599	0.86[EUR][1000 genomes]
rs73606600	0.86[EUR][1000 genomes]
rs73608203	0.86[EUR][1000 genomes]
rs73608204	0.86[EUR][1000 genomes]
rs73608206	0.86[EUR][1000 genomes]
rs73608208	0.86[EUR][1000 genomes]
rs73608210	0.93[EUR][1000 genomes]
rs73608211	0.86[EUR][1000 genomes]
rs73608212	0.86[EUR][1000 genomes]
rs73608213	0.86[EUR][1000 genomes]
rs73608214	0.93[EUR][1000 genomes]
rs73608216	0.93[EUR][1000 genomes]
rs73608217	0.93[EUR][1000 genomes]
rs73608218	0.93[EUR][1000 genomes]
rs73608219	0.93[EUR][1000 genomes]
rs73608223	0.86[EUR][1000 genomes]
rs73608224	0.86[EUR][1000 genomes]
rs73608225	0.86[EUR][1000 genomes]
rs73608229	0.86[EUR][1000 genomes]
rs73608233	0.86[EUR][1000 genomes]
rs73608234	0.86[EUR][1000 genomes]
rs73608235	0.86[EUR][1000 genomes]
rs73608236	0.86[EUR][1000 genomes]
rs73608237	0.86[EUR][1000 genomes]
rs73608238	0.86[EUR][1000 genomes]
rs73608239	0.86[EUR][1000 genomes]
rs73608240	0.86[EUR][1000 genomes]
rs73608241	0.86[EUR][1000 genomes]
rs7902783	1.00[CEU][hapmap]
rs7903171	1.00[CEU][hapmap]
rs7905478	0.86[EUR][1000 genomes]
rs7906676	1.00[CEU][hapmap]
rs7918295	1.00[CEU][hapmap]
rs7920527	0.80[EUR][1000 genomes]
rs9663998	0.86[EUR][1000 genomes]
rs9988788	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894970	chr10:25385858-25522280	Enhancers Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Weak transcription Active TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv894971	chr10:25403234-25522280	Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:25392400-25414200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr10:25413400-25414800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
3	chr10:25413600-25415000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr10:25414000-25414200	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr10:25414000-25414200	Flanking Active TSS	Brain Anterior Caudate	brain
6	chr10:25414000-25414200	Enhancers	Fetal Brain Female	brain
7	chr10:25414000-25414400	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
8	chr10:25414000-25414600	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
9	chr10:25414000-25414600	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
10	chr10:25414000-25414600	Flanking Active TSS	Brain Germinal Matrix	brain
11	chr10:25414000-25414800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

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