Variant report

Variant	rs1198315
Chromosome Location	chr13:50370168-50370169
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:50363308..50365589-chr13:50370131..50372850,2	K562	blood:
2	chr13:50365538..50368306-chr13:50370058..50373207,5	K562	blood:

Variant related genes	Relation type
ENSG00000102753	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs1009333	0.93[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10492591	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1198319	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1198320	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1198322	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1198324	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1198327	0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.80[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1198328	0.83[EUR][1000 genomes]
rs1201716	0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1211304	1.00[CEU][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1547623	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1570353	1.00[CEU][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1581745	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2181185	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs2407804	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs2897770	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs3851162	0.85[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs3851164	0.83[AFR][1000 genomes];0.84[EUR][1000 genomes]
rs3851166	0.82[EUR][1000 genomes]
rs4942863	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4942866	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs55732704	0.82[EUR][1000 genomes]
rs59641461	0.82[EUR][1000 genomes]
rs61961491	0.93[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs61961500	0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs61961501	0.85[EUR][1000 genomes]
rs61961502	0.93[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs73194445	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs7330392	0.81[AMR][1000 genomes]
rs7983303	0.86[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7984061	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7996307	0.82[EUR][1000 genomes]
rs9316474	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9316476	0.82[EUR][1000 genomes]
rs9535316	0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9535340	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs9535341	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs9562927	1.00[CEU][hapmap];0.95[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:7 , 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	esv1818134	chr13:50306897-50374102	Flanking Active TSS Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	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
5	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
6	esv1835811	chr13:50370004-50374102	Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv1839614	chr13:50370004-50374102	Weak transcription	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1198315	TRIM13	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:50368000-50372600	Weak transcription	Spleen	Spleen
2	chr13:50368400-50378600	Weak transcription	HepG2	liver
3	chr13:50368600-50374400	Weak transcription	Placenta	Placenta
4	chr13:50369200-50370200	Weak transcription	K562	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links