Variant report

Variant	rs7649560
Chromosome Location	chr3:70043398-70043399
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr3:70041451..70045130-chr3:70045704..70051320,7	K562	blood:

Variant related genes	Relation type
ENSG00000240405	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10510994	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11923982	0.93[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12495615	0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1491694	0.85[CEU][hapmap];0.94[YRI][hapmap]
rs1491696	0.88[CEU][hapmap]
rs1491700	0.86[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs17729465	0.81[AMR][1000 genomes]
rs17729489	0.85[AMR][1000 genomes]
rs17785152	1.00[CEU][hapmap];0.86[CHB][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17785756	1.00[CEU][hapmap];0.97[YRI][hapmap];0.85[AMR][1000 genomes]
rs28462307	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3849467	0.90[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4293707	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4855335	0.85[AMR][1000 genomes]
rs55966844	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs58166970	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs60251138	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60403843	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs60647884	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6763730	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6799525	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7431273	0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7611660	0.84[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.90[YRI][hapmap];0.91[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7619924	1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7632596	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7645353	0.86[AMR][1000 genomes]
rs9310181	0.85[AMR][1000 genomes]
rs9815027	1.00[CEU][hapmap];0.81[CHB][hapmap];1.00[YRI][hapmap];0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9818798	0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs9826811	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9837453	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs9840951	0.80[AMR][1000 genomes]
rs9843867	0.89[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9856462	0.87[AMR][1000 genomes];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	nsv533396	chr3:69964029-70538306	Weak transcription Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7649560	RP11-460N16.1	cis	Artery Aorta	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:70037600-70045200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
2	chr3:70041200-70061000	Weak transcription	Aorta	Aorta
3	chr3:70041600-70047800	Weak transcription	Fetal Brain Male	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links