Variant report

Variant	rs1198319
Chromosome Location	chr13:50376858-50376859
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs1009333	0.97[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10492591	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1198315	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1198320	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1198322	1.00[CEU][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1198324	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1198327	0.96[YRI][hapmap];0.97[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1198328	0.83[EUR][1000 genomes]
rs1201716	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1211304	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1407440	1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs1407441	1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs1547623	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1570353	1.00[CEU][hapmap];0.96[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1581745	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2146143	0.87[GIH][hapmap];0.80[TSI][hapmap]
rs2181185	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2407804	0.81[EUR][1000 genomes]
rs2897770	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3851162	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3851164	0.87[AFR][1000 genomes];0.80[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3851166	0.82[EUR][1000 genomes]
rs4942863	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4942866	0.94[EUR][1000 genomes]
rs55732704	0.82[EUR][1000 genomes]
rs59641461	0.82[EUR][1000 genomes]
rs61961491	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61961500	0.97[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61961501	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs61961502	0.97[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs6561552	0.87[GIH][hapmap]
rs6561560	1.00[GIH][hapmap]
rs73194445	0.86[AFR][1000 genomes];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7330392	0.86[AMR][1000 genomes]
rs7983303	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7984061	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7996307	0.82[EUR][1000 genomes]
rs9316474	1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9316476	0.82[EUR][1000 genomes]
rs9535310	1.00[GIH][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap]
rs9535316	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9535340	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9535341	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9562927	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9596197	0.84[EUR][1000 genomes]
rs9596200	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv900072	chr13:50266109-50381016	Weak transcription ZNF genes & repeats Strong transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv900073	chr13:50286218-50381016	Enhancers Active TSS Strong transcription Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv900074	chr13:50317104-50381016	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv900075	chr13:50331992-50376858	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1198319	TRIM13	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50368400-50378600	Weak transcription	HepG2	liver
2	chr13:50374400-50377000	Enhancers	Placenta	Placenta
3	chr13:50376600-50377000	Enhancers	K562	blood

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