Variant report

Variant	rs55649496
Chromosome Location	chr3:59935426-59935427
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10510820	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12486471	0.81[EUR][1000 genomes]
rs12489929	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12490649	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17253376	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17254898	0.80[AMR][1000 genomes]
rs17309998	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17375293	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3772466	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs3772470	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs3772479	0.93[EUR][1000 genomes]
rs55728186	0.89[ASN][1000 genomes]
rs55815123	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56045349	0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs56963766	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs58197240	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs60347439	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73089911	0.81[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73089917	0.89[ASN][1000 genomes]
rs73089929	0.80[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs73104585	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73104597	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73106507	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs73106547	0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73106565	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs73106568	0.89[EUR][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:10 , 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	chr3:59935200-59935600	Enhancers	Fetal Brain Female	brain
10	chr3:59935200-59935800	Weak transcription	Primary T cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links