Variant report

Variant	rs3105309
Chromosome Location	chr10:58876661-58876662
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 109 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:87)

rs_ID	r²[population]
rs11005639	1.00[ASN][1000 genomes]
rs11005651	1.00[ASN][1000 genomes]
rs11005687	0.82[ASN][1000 genomes]
rs1120047	0.84[ASN][1000 genomes]
rs11817223	0.82[ASN][1000 genomes]
rs1394103	1.00[ASN][1000 genomes]
rs1503903	0.90[EUR][1000 genomes]
rs1503904	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1503905	1.00[ASN][1000 genomes]
rs1503906	1.00[ASN][1000 genomes]
rs1503907	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1503908	1.00[ASN][1000 genomes]
rs1503911	1.00[ASN][1000 genomes]
rs1503914	0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs16910232	1.00[ASN][1000 genomes]
rs16910285	0.82[ASN][1000 genomes]
rs1818173	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1827580	1.00[ASN][1000 genomes]
rs1875769	1.00[ASN][1000 genomes]
rs1875770	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1875771	1.00[ASN][1000 genomes]
rs1875773	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1910496	1.00[ASN][1000 genomes]
rs2007334	1.00[ASN][1000 genomes]
rs2013953	1.00[ASN][1000 genomes]
rs2013958	1.00[ASN][1000 genomes]
rs2036504	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2055556	1.00[ASN][1000 genomes]
rs2102229	1.00[ASN][1000 genomes]
rs2102230	0.97[ASN][1000 genomes]
rs2174231	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2174232	0.82[ASN][1000 genomes]
rs2202301	1.00[ASN][1000 genomes]
rs2893720	1.00[ASN][1000 genomes]
rs3104619	0.88[ASN][1000 genomes]
rs3104620	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3104621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3104622	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3104623	0.97[ASN][1000 genomes]
rs3104624	0.88[EUR][1000 genomes]
rs3104626	1.00[ASN][1000 genomes]
rs3104627	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3104628	1.00[ASN][1000 genomes]
rs3104629	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3104633	1.00[ASN][1000 genomes]
rs3104634	1.00[ASN][1000 genomes]
rs3104635	0.91[ASN][1000 genomes]
rs3104636	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3104637	0.88[EUR][1000 genomes]
rs3104671	0.84[ASN][1000 genomes]
rs3104672	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3104673	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs3104676	0.87[ASN][1000 genomes]
rs3104677	0.88[ASN][1000 genomes]
rs3104678	0.87[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105300	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3105301	1.00[ASN][1000 genomes]
rs3105303	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3105306	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3105307	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3105308	1.00[ASN][1000 genomes]
rs3105310	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3105314	1.00[ASN][1000 genomes]
rs3105316	1.00[ASN][1000 genomes]
rs3105321	0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3105349	0.87[ASN][1000 genomes]
rs3105350	0.87[ASN][1000 genomes]
rs3105353	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105354	0.88[ASN][1000 genomes]
rs3105355	0.91[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3105357	0.88[ASN][1000 genomes]
rs3105358	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3107504	0.82[ASN][1000 genomes]
rs3107511	0.82[ASN][1000 genomes]
rs3861043	0.97[ASN][1000 genomes]
rs4935688	0.82[ASN][1000 genomes]
rs7074723	0.88[EUR][1000 genomes]
rs71020944	1.00[ASN][1000 genomes]
rs924792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs924794	1.00[ASN][1000 genomes]
rs983569	1.00[ASN][1000 genomes]
rs983570	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs988162	0.94[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs988486	1.00[ASN][1000 genomes]
rs990279	1.00[ASN][1000 genomes]
rs995236	1.00[ASN][1000 genomes]
rs995237	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:22 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895513	chr10:58672533-58979792	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv1053600	chr10:58730645-58881832	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv895515	chr10:58802422-58913651	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	esv2757391	chr10:58822244-58948207	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	esv2759759	chr10:58822244-58948207	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Strong transcription Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv895516	chr10:58836950-58884494	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv895517	chr10:58836950-58957774	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv895519	chr10:58843951-58905847	Enhancers Weak transcription Bivalent Enhancer Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv895520	chr10:58843951-58933549	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv551106	chr10:58846575-58892275	ZNF genes & repeats Enhancers Strong transcription Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	esv2756345	chr10:58846594-59027194	Weak transcription Strong transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
12	nsv895521	chr10:58849853-58963458	Weak transcription ZNF genes & repeats Enhancers Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	esv2829927	chr10:58849853-58979792	Weak transcription ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv551107	chr10:58853784-58918899	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv895522	chr10:58853784-58918899	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv895523	chr10:58853784-58945720	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv895524	chr10:58853784-58953960	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv895525	chr10:58853784-58963458	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv895526	chr10:58853784-58970006	Weak transcription Enhancers ZNF genes & repeats Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv895527	chr10:58853784-58979792	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv895528	chr10:58853784-58991581	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
22	nsv551108	chr10:58870687-58918899	Weak transcription Active TSS ZNF genes & repeats Bivalent Enhancer Enhancers Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:58863200-58879400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr10:58868600-58878000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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