Variant report

Variant	rs2028440
Chromosome Location	chr10:56126202-56126203
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10509011	0.86[CEU][hapmap]
rs10740579	0.86[CEU][hapmap]
rs10825306	0.86[CEU][hapmap]
rs10825307	0.84[CEU][hapmap]
rs10825319	0.88[ASN][1000 genomes]
rs10825321	0.83[CHD][hapmap]
rs11004239	0.86[CEU][hapmap]
rs11004267	0.95[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs11004270	0.95[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap]
rs11004272	0.87[CHD][hapmap]
rs11004275	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11004276	0.87[ASN][1000 genomes]
rs1156657	0.86[CEU][hapmap];0.89[GIH][hapmap];0.96[MEX][hapmap]
rs1159865	0.86[CEU][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap]
rs12354432	0.86[CEU][hapmap];0.81[CHD][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap]
rs1319836	0.86[CEU][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap]
rs1342281	0.86[CEU][hapmap];0.82[CHD][hapmap];0.89[GIH][hapmap]
rs1342285	0.86[CEU][hapmap]
rs1342292	0.86[CEU][hapmap];0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1342294	0.81[CEU][hapmap]
rs1342300	0.85[CEU][hapmap]
rs1342305	0.86[CEU][hapmap]
rs1418374	0.85[CEU][hapmap]
rs1758816	0.82[CHB][hapmap]
rs1935468	0.86[CEU][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap]
rs1970519	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1975405	0.84[CHB][hapmap]
rs2050999	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs2078091	0.85[CHB][hapmap]
rs2384424	0.85[CHB][hapmap]
rs2384425	0.83[CHB][hapmap]
rs4269840	0.90[CEU][hapmap]
rs4411207	0.86[CEU][hapmap]
rs4471336	0.86[CEU][hapmap]
rs6481084	0.81[AMR][1000 genomes]
rs7073678	0.84[CHB][hapmap]
rs7078666	0.89[CEU][hapmap]
rs7087862	0.83[CHB][hapmap]
rs7092744	0.81[CHB][hapmap]
rs7342027	0.86[CEU][hapmap]
rs7918002	0.83[CEU][hapmap]
rs7919725	0.86[CEU][hapmap]
rs857368	0.81[CEU][hapmap]
rs857371	0.85[CEU][hapmap]
rs857373	0.86[CEU][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap]
rs857374	0.86[CEU][hapmap];0.82[CHD][hapmap];0.91[GIH][hapmap]
rs857392	0.85[CEU][hapmap]
rs857394	0.86[CEU][hapmap];0.91[GIH][hapmap]
rs857395	0.86[CEU][hapmap];0.91[GIH][hapmap];0.96[MEX][hapmap]
rs865091	0.82[CEU][hapmap];0.91[GIH][hapmap]
rs965265	0.86[CEU][hapmap];0.91[GIH][hapmap];0.91[MEX][hapmap]
rs965266	0.86[CEU][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap]
rs965267	0.90[CEU][hapmap]
rs978842	0.86[CEU][hapmap]
rs9943342	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1054364	chr10:55925471-56196447	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
2	nsv540633	chr10:55925471-56196447	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	esv2753511	chr10:56022197-56153636	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv1044020	chr10:56038546-56224736	Enhancers ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv540634	chr10:56038546-56224736	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv831879	chr10:56059973-56210729	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1052386	chr10:56075990-56273476	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv895437	chr10:56083891-56132046	ZNF genes & repeats Enhancers Flanking Active TSS Weak transcription Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
9	nsv895438	chr10:56083891-56146761	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
10	nsv550953	chr10:56084933-56126202	Weak transcription ZNF genes & repeats Active TSS Enhancers Flanking Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
11	nsv467218	chr10:56084933-56132046	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
12	nsv550954	chr10:56084933-56132046	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
13	nsv550955	chr10:56084933-56146761	ZNF genes & repeats Enhancers Weak transcription Active TSS Flanking Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
14	nsv895439	chr10:56084933-56146761	Enhancers Active TSS ZNF genes & repeats Weak transcription Flanking Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
15	nsv467219	chr10:56087423-56126202	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS	TF binding region	1 gene(s)	inside rSNPs	diseases
16	nsv550956	chr10:56087423-56126202	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS	TF binding region	1 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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