Variant report

Variant	rs10028250
Chromosome Location	chr4:110311943-110311944
allele	G/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:87)

rs_ID	r²[population]
rs10000545	0.86[JPT][hapmap]
rs10002595	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs10016533	1.00[MEX][hapmap]
rs10155127	0.86[JPT][hapmap]
rs10155246	0.92[CEU][hapmap]
rs11098033	0.90[CHD][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs11098035	0.90[CHD][hapmap];0.86[JPT][hapmap]
rs11929713	0.84[CHD][hapmap];0.85[JPT][hapmap]
rs11930655	0.84[JPT][hapmap]
rs11933172	0.93[CEU][hapmap];0.90[CHD][hapmap];0.83[GIH][hapmap]
rs11934486	0.81[ASN][1000 genomes]
rs11935440	0.81[ASN][1000 genomes]
rs11935629	0.81[ASN][1000 genomes]
rs11938593	0.81[ASN][1000 genomes]
rs11939924	0.91[ASN][1000 genomes]
rs11942140	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs11942291	1.00[JPT][hapmap]
rs11942858	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs11942928	0.81[ASN][1000 genomes]
rs11943384	0.85[JPT][hapmap];0.81[ASN][1000 genomes]
rs11943430	0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs11944375	0.81[ASN][1000 genomes]
rs11944427	0.81[ASN][1000 genomes]
rs11944659	0.81[ASN][1000 genomes]
rs12639832	0.81[ASN][1000 genomes]
rs12640049	0.88[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12643055	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs12644055	0.81[ASN][1000 genomes]
rs12647695	0.81[ASN][1000 genomes]
rs12648138	0.86[JPT][hapmap]
rs12648965	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs12650654	0.90[CHD][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs12650873	0.81[ASN][1000 genomes]
rs13103034	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs13113384	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs13119700	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs13123618	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs13128445	0.85[MEX][hapmap]
rs13138833	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs13142698	0.90[CHD][hapmap];1.00[MEX][hapmap]
rs13143825	0.86[JPT][hapmap]
rs13145066	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs1509314	1.00[JPT][hapmap]
rs1509315	0.86[JPT][hapmap]
rs17040410	0.81[ASN][1000 genomes]
rs17040436	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs17040439	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs17040461	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs17585970	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs17619262	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs2346014	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs28585579	0.85[ASN][1000 genomes]
rs28628718	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs28681408	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs61553525	0.81[ASN][1000 genomes]
rs6533426	0.84[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6533429	0.81[ASN][1000 genomes]
rs6533434	1.00[MEX][hapmap]
rs6815455	0.86[JPT][hapmap]
rs6818911	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs6825928	0.93[CEU][hapmap];0.88[MEX][hapmap]
rs6835683	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs6841133	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6841198	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs6841222	0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs6848452	0.83[AMR][1000 genomes]
rs6851517	0.81[ASN][1000 genomes]
rs6856291	0.86[JPT][hapmap]
rs7436583	0.90[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.83[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs7436745	0.90[CHD][hapmap];0.86[JPT][hapmap];0.81[ASN][1000 genomes]
rs7440371	0.81[ASN][1000 genomes]
rs7440570	0.86[JPT][hapmap]
rs7673595	0.93[CEU][hapmap]
rs7675344	0.93[CEU][hapmap]
rs7675602	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]
rs7684744	0.95[ASN][1000 genomes]
rs7685787	0.85[ASN][1000 genomes]
rs7687245	0.86[JPT][hapmap]
rs7695754	0.91[CEU][hapmap]
rs876464	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9985632	0.85[CHD][hapmap];0.86[JPT][hapmap];0.88[MEX][hapmap]
rs9985964	0.86[JPT][hapmap]
rs9993228	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9994676	0.85[CHD][hapmap];0.86[JPT][hapmap]
rs9996165	0.92[CEU][hapmap]
rs9996432	0.84[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs9999570	0.85[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461613	chr4:109922064-110593460	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
2	nsv595129	chr4:109922064-110593460	Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	43 gene(s)	inside rSNPs	diseases
3	esv1799708	chr4:110309234-110333106	Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:110306600-110316400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr4:110310600-110316800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr4:110310800-110317000	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr4:110310800-110318800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr4:110311200-110317000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr4:110311200-110327800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr4:110311600-110312000	Enhancers	GM12878-XiMat	blood
8	chr4:110311600-110331400	Weak transcription	HSMMtube	muscle
9	chr4:110311800-110312200	Enhancers	Fetal Muscle Leg	muscle

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