Variant report

Variant	rs4938859
Chromosome Location	chr11:57039835-57039836
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-P2RX3-3	chr11:57039097-57040653	predAs_engstrom06_BX444320_1

Extended variants
information (count: 77 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:76)

rs_ID	r²[population]
rs10792083	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs10792085	0.83[CEU][hapmap]
rs10896595	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10896597	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10896599	0.85[ASN][1000 genomes]
rs10896602	0.83[CEU][hapmap]
rs11228968	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11228975	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11228976	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11228978	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11228980	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11228982	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11228984	0.92[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11228985	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11228988	0.85[EUR][1000 genomes]
rs11600878	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11604373	0.82[EUR][1000 genomes]
rs11604560	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11604778	0.83[ASN][1000 genomes]
rs11605053	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11607817	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12419065	0.88[ASN][1000 genomes]
rs12421633	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12421755	0.99[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12792781	0.84[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs12797769	0.95[ASN][1000 genomes]
rs17572970	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17651610	0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17652078	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1892963	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1892964	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1939489	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1939495	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2155230	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2155231	0.88[ASN][1000 genomes]
rs2226613	0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2276038	0.83[JPT][hapmap]
rs2511026	0.85[ASN][1000 genomes]
rs2511029	0.88[ASN][1000 genomes]
rs2511030	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2846042	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs2846049	0.82[ASN][1000 genomes]
rs2846050	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2846051	0.86[ASN][1000 genomes]
rs2851722	0.81[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs35610294	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3935068	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4384399	0.99[AFR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4565915	0.94[ASN][1000 genomes]
rs479949	0.93[ASN][1000 genomes]
rs4938855	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4938857	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4938861	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4939132	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs499318	0.93[ASN][1000 genomes]
rs5012051	1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs519277	0.93[ASN][1000 genomes]
rs522656	0.88[ASN][1000 genomes]
rs528101	0.81[AFR][1000 genomes];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58295319	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs590240	0.88[ASN][1000 genomes]
rs599947	0.88[ASN][1000 genomes]
rs625565	0.93[ASN][1000 genomes]
rs652016	0.80[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs654635	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6591413	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6591415	1.00[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6591416	0.94[ASN][1000 genomes]
rs6591417	0.94[ASN][1000 genomes]
rs7102963	0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7120644	0.84[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7128371	0.81[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs7130252	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.92[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs72921992	0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7935236	0.91[ASN][1000 genomes]
rs7943761	0.82[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv915640	chr11:56814841-57139786	Weak transcription Transcr. at gene 5' and 3' Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:57037200-57042200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr11:57037400-57041400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr11:57039000-57040800	Weak transcription	Spleen	Spleen

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