Variant report

Variant	rs1898554
Chromosome Location	chr4:173602023-173602024
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 92 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs10016145	0.91[CHB][hapmap];0.84[JPT][hapmap]
rs10024969	0.85[JPT][hapmap]
rs10520242	0.84[JPT][hapmap]
rs10866355	0.93[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10866361	0.84[JPT][hapmap]
rs10866362	0.85[JPT][hapmap]
rs10866364	0.81[JPT][hapmap]
rs1106651	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11132951	0.85[CEU][hapmap];0.86[CHB][hapmap]
rs11132952	0.89[CEU][hapmap];0.95[CHB][hapmap]
rs11132954	0.83[CHB][hapmap];1.00[JPT][hapmap]
rs11132955	0.85[CEU][hapmap];0.81[CHB][hapmap];0.84[JPT][hapmap]
rs11132959	0.94[JPT][hapmap];0.85[ASN][1000 genomes]
rs1158684	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11722378	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11938551	0.84[JPT][hapmap]
rs12501331	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12509744	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12511707	0.84[JPT][hapmap]
rs12513314	0.84[JPT][hapmap]
rs12642131	0.89[CEU][hapmap];0.95[CHB][hapmap]
rs12643395	0.85[JPT][hapmap]
rs12647340	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12649403	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12649426	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs12651320	0.84[JPT][hapmap]
rs13107045	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13134194	0.84[JPT][hapmap]
rs13146563	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs1347698	0.84[JPT][hapmap]
rs1347700	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1347702	0.84[JPT][hapmap]
rs1370581	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1437831	1.00[YRI][hapmap]
rs1437834	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[YRI][hapmap]
rs1437837	0.89[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs1437842	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1540466	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs1540468	0.84[JPT][hapmap]
rs1540470	0.96[CEU][hapmap];0.91[CHB][hapmap];0.94[JPT][hapmap]
rs1540472	0.84[JPT][hapmap]
rs1548346	1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];0.93[ASN][1000 genomes]
rs1548347	0.89[ASN][1000 genomes]
rs17058752	0.85[JPT][hapmap]
rs17307651	0.92[CEU][hapmap];1.00[CHB][hapmap];0.89[JPT][hapmap]
rs17308839	1.00[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.85[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17308944	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1946797	0.84[JPT][hapmap]
rs2043783	0.84[JPT][hapmap]
rs2118439	0.96[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2118442	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34567973	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35184155	0.86[AMR][1000 genomes];0.80[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35280724	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35345168	0.87[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4470604	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4476577	0.86[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap]
rs4546224	0.84[JPT][hapmap]
rs4569731	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs4608790	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4695771	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4695799	1.00[CHB][hapmap];0.94[JPT][hapmap]
rs4695878	0.85[CEU][hapmap]
rs4695932	0.84[JPT][hapmap]
rs4696006	1.00[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap]
rs4696015	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4696016	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4696022	0.85[JPT][hapmap]
rs55850929	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6553645	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs6553658	0.85[JPT][hapmap]
rs6819441	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6822571	0.93[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs6822579	0.85[ASN][1000 genomes]
rs6827154	0.84[JPT][hapmap]
rs6855645	0.92[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6858309	0.84[CEU][hapmap];0.95[CHB][hapmap];0.80[JPT][hapmap]
rs7438724	0.90[CHB][hapmap];0.83[JPT][hapmap]
rs748347	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs7658615	0.89[CEU][hapmap]
rs7659511	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs7672787	0.83[AMR][1000 genomes];0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7691448	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs837196	0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1031592	chr4:173112542-173662991	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
2	nsv537359	chr4:173112542-173662991	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv534293	chr4:173121379-173606082	Enhancers Weak transcription Bivalent Enhancer ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv948856	chr4:173388217-173967546	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv949126	chr4:173466221-174051451	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv880685	chr4:173562564-173661711	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv880613	chr4:173569281-173661711	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	esv3327952	chr4:173591786-173805861	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:173600400-173602200	Enhancers	Adipose Nuclei	Adipose
2	chr4:173601600-173606000	Enhancers	Placenta Amnion	Placenta Amnion
3	chr4:173602000-173602400	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:173602000-173602400	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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