Variant report

Variant	rs17040489
Chromosome Location	chr2:77137967-77137968
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10170002	1.00[CHB][hapmap]
rs10189354	0.81[JPT][hapmap]
rs10193253	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs10193677	1.00[CHB][hapmap]
rs10195940	0.86[CHB][hapmap]
rs10195967	0.92[JPT][hapmap]
rs10199076	0.84[JPT][hapmap]
rs10204605	1.00[CHB][hapmap];1.00[CHD][hapmap]
rs10205089	0.86[CHB][hapmap];1.00[CHD][hapmap]
rs10211427	0.92[JPT][hapmap]
rs10211542	0.92[JPT][hapmap]
rs10520173	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10520175	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11126578	0.86[JPT][hapmap]
rs11884377	1.00[CHB][hapmap];0.95[CHD][hapmap]
rs11886794	0.99[ASN][1000 genomes]
rs11899047	0.86[CHB][hapmap];0.85[CHD][hapmap];1.00[JPT][hapmap]
rs12105351	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs13384774	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13396539	1.00[JPT][hapmap]
rs13400981	0.92[JPT][hapmap]
rs13413625	1.00[CHB][hapmap]
rs13417401	1.00[CHB][hapmap]
rs1446711	0.90[JPT][hapmap]
rs1446719	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1562343	0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs17013284	0.84[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs17013289	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs17013370	1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs17013382	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs17013386	1.00[ASW][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs17013452	1.00[ASW][hapmap];0.86[CHB][hapmap];0.93[CHD][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs17013535	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs17013563	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs17013580	0.86[CHB][hapmap];1.00[JPT][hapmap]
rs17040494	0.86[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs1882350	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs1929450	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2103377	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs35601932	0.97[ASN][1000 genomes]
rs41375150	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap]
rs57059027	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs57972121	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs60022618	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs60837510	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61538333	0.97[ASN][1000 genomes]
rs6708694	1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[ASN][1000 genomes]
rs6751017	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9309507	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv874322	chr2:77031247-77209750	Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
2	esv2752990	chr2:77038541-77217310	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv874324	chr2:77048896-77201916	Weak transcription Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv874326	chr2:77055883-77148261	Enhancers Active TSS Weak transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv582251	chr2:77055883-77154515	Enhancers Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv874327	chr2:77085752-77209750	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv874328	chr2:77096124-77196122	Enhancers Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
8	nsv874329	chr2:77096124-77209750	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
9	esv1819739	chr2:77103474-77162163	Enhancers Weak transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
10	nsv874330	chr2:77103719-77209750	Weak transcription Enhancers Active TSS	TF binding region Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
11	nsv834266	chr2:77120236-77287504	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv949670	chr2:77125218-77712607	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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