Variant report

Variant	rs13063413
Chromosome Location	chr3:59935804-59935805
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 51 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10490808	0.91[CEU][hapmap];0.91[CHB][hapmap];0.86[CHD][hapmap];0.88[GIH][hapmap];0.86[JPT][hapmap];0.81[MEX][hapmap];0.86[MKK][hapmap];0.93[TSI][hapmap];0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11130742	0.91[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.81[MEX][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11130743	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12630463	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13070349	0.83[ASN][1000 genomes]
rs13070475	0.88[ASN][1000 genomes]
rs13073897	0.81[EUR][1000 genomes]
rs13077692	0.86[CHB][hapmap];0.86[JPT][hapmap];0.84[ASN][1000 genomes]
rs13081936	0.91[CEU][hapmap];0.88[GIH][hapmap];0.94[MEX][hapmap];0.89[MKK][hapmap];0.96[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13081972	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13088505	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs13088669	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13092173	0.84[CEU][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs13092997	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13094437	0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs13096138	0.87[CEU][hapmap];0.86[TSI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17061517	1.00[YRI][hapmap]
rs212014	0.91[CEU][hapmap];0.87[EUR][1000 genomes]
rs2687899	0.86[CHD][hapmap];0.81[JPT][hapmap]
rs2736791	0.86[EUR][1000 genomes]
rs3772458	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs3772464	0.83[LWK][hapmap]
rs3772468	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3772473	0.87[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3772483	0.91[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3772484	0.82[CHB][hapmap];0.89[ASN][1000 genomes]
rs3772491	0.91[CEU][hapmap];0.91[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.91[JPT][hapmap];0.81[MEX][hapmap];0.89[TSI][hapmap];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3772492	0.91[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.81[MEX][hapmap];0.91[TSI][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3772499	0.91[CEU][hapmap];0.85[LWK][hapmap];0.87[MEX][hapmap];0.86[TSI][hapmap];0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3772500	0.91[CEU][hapmap];0.89[TSI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3772502	0.86[AFR][1000 genomes];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs3772505	1.00[ASW][hapmap];0.83[CEU][hapmap];1.00[LWK][hapmap];0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs3821476	0.80[CHD][hapmap]
rs3821478	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3821479	0.87[CEU][hapmap];0.91[CHB][hapmap];0.86[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3821480	0.82[CHB][hapmap];0.86[CHD][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs3821481	0.91[CEU][hapmap];0.86[CHB][hapmap];0.88[CHD][hapmap];0.84[GIH][hapmap];0.86[JPT][hapmap];0.81[MEX][hapmap];0.91[TSI][hapmap];0.81[AMR][1000 genomes];0.92[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3821482	0.83[ASN][1000 genomes]
rs6446101	0.83[EUR][1000 genomes]
rs6771484	0.86[CEU][hapmap];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6771698	0.89[ASN][1000 genomes]
rs6784057	1.00[ASW][hapmap];1.00[LWK][hapmap];0.82[AFR][1000 genomes];0.81[EUR][1000 genomes]
rs6805337	0.88[ASN][1000 genomes]
rs7615116	0.92[ASN][1000 genomes]
rs7640107	0.91[CEU][hapmap];0.91[CHB][hapmap];0.89[CHD][hapmap];0.90[GIH][hapmap];0.91[JPT][hapmap];0.81[MEX][hapmap];0.93[TSI][hapmap];0.87[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs802772	0.82[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs802774	0.83[ASN][1000 genomes]
rs812445	0.82[CHB][hapmap];0.91[CHD][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59927200-59938400	Weak transcription	Fetal Thymus	thymus
2	chr3:59927600-59940200	Weak transcription	Thymus	Thymus
3	chr3:59928000-59937200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr3:59928400-59938200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
5	chr3:59928800-59942800	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr3:59933200-59942800	Weak transcription	Primary T cells fromperipheralblood	blood
7	chr3:59934000-59936600	Weak transcription	Dnd41	blood
8	chr3:59935000-59936800	Weak transcription	Primary T helper cells PMA-I stimulated	--
9	chr3:59935800-59940000	Strong transcription	Primary T cells from cord blood	blood

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