Variant report

Variant	rs17011592
Chromosome Location	chr4:87169541-87169542
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 117 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:112)

rs_ID	r²[population]
rs10003556	0.88[ASN][1000 genomes]
rs10003756	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10004539	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10009161	0.88[ASN][1000 genomes]
rs10010011	0.86[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs10016847	0.88[ASN][1000 genomes]
rs10019871	0.88[ASN][1000 genomes]
rs10022904	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10026060	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10026338	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10027764	0.88[CHB][hapmap]
rs10029339	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs10034428	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs10035072	1.00[CHB][hapmap]
rs10213302	0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10213451	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10213453	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10516769	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1108429	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11097101	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11097102	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11097103	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs11935211	0.91[ASN][1000 genomes]
rs12500319	0.84[ASN][1000 genomes]
rs12639693	0.88[CHB][hapmap];0.81[JPT][hapmap]
rs12640392	0.85[CHB][hapmap];0.91[JPT][hapmap];0.84[ASN][1000 genomes]
rs12646076	0.88[ASN][1000 genomes]
rs12650052	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1460750	0.88[ASN][1000 genomes]
rs1460758	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1460759	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs1460760	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1460761	0.88[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1460763	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1460764	0.88[ASN][1000 genomes]
rs1599313	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1599314	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17011421	0.88[ASN][1000 genomes]
rs17011460	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17011540	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs17011547	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs17011564	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs17011584	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17011588	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17011654	0.90[JPT][hapmap];0.89[ASN][1000 genomes]
rs17011655	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs1903360	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs1903361	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2035056	0.98[ASN][1000 genomes]
rs2035057	0.91[ASN][1000 genomes]
rs2035058	0.85[CHB][hapmap];0.82[JPT][hapmap];0.89[ASN][1000 genomes]
rs2199308	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2199309	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs28425193	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28583812	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28642002	0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2869421	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs2869422	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28722990	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs28791572	0.96[ASN][1000 genomes]
rs28803851	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28812808	0.91[ASN][1000 genomes]
rs28830922	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs28839895	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28870188	0.91[ASN][1000 genomes]
rs28896887	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2904090	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4132490	0.88[CHB][hapmap];0.90[JPT][hapmap];0.93[ASN][1000 genomes]
rs4561895	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59124829	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6531905	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6531906	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6531907	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6531909	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6531910	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6531911	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs67768527	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6814005	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6817452	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6821819	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6825521	0.88[ASN][1000 genomes]
rs6826951	0.88[ASN][1000 genomes]
rs6827405	0.85[ASN][1000 genomes]
rs6827698	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6828947	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6829870	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6832259	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs6844363	0.85[CHB][hapmap];0.91[JPT][hapmap];0.86[ASN][1000 genomes]
rs6844365	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6845605	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs6845742	0.88[ASN][1000 genomes]
rs7440491	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7655797	0.88[ASN][1000 genomes]
rs7657056	0.88[ASN][1000 genomes]
rs7663388	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7663763	0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7668374	0.82[ASN][1000 genomes]
rs7669487	0.88[ASN][1000 genomes]
rs7678480	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7680934	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs7685419	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7685683	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7687771	1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs7695707	0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7699047	0.88[ASN][1000 genomes]
rs9307016	0.81[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9654155	0.91[ASN][1000 genomes]
rs9884127	1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs9994303	0.87[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9996693	0.88[ASN][1000 genomes]
rs9997633	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9999403	1.00[JPT][hapmap];0.91[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003585	chr4:86957967-87250436	Enhancers Weak transcription Strong transcription ZNF genes & repeats Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594786	chr4:87076360-87609320	Weak transcription Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	esv2763374	chr4:87151085-87184332	Strong transcription Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv999470	chr4:87165663-87514552	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
5	nsv537164	chr4:87165663-87514552	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:87149200-87186200	Weak transcription	Ovary	ovary
2	chr4:87155200-87185400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
3	chr4:87164800-87176200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr4:87168200-87178800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr4:87168600-87170400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr4:87169000-87176000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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