Variant report

Variant	rs2470792
Chromosome Location	chr3:98751404-98751405
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 96 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:88)

rs_ID	r²[population]
rs1524227	0.86[EUR][1000 genomes]
rs1524228	0.86[EUR][1000 genomes]
rs1524229	0.86[EUR][1000 genomes]
rs1580372	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1580374	0.87[EUR][1000 genomes]
rs1580375	0.81[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs1585986	0.86[EUR][1000 genomes]
rs1585988	0.85[EUR][1000 genomes]
rs2200034	0.82[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs2448988	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2448989	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2448990	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2448991	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2448992	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2449006	0.81[EUR][1000 genomes]
rs2449007	0.81[EUR][1000 genomes]
rs2449032	0.83[AMR][1000 genomes]
rs2449055	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2449058	0.85[EUR][1000 genomes]
rs2449059	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2449061	0.86[EUR][1000 genomes]
rs2449062	0.86[EUR][1000 genomes]
rs2449063	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2449064	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2449065	0.85[EUR][1000 genomes]
rs2449066	0.86[EUR][1000 genomes]
rs2449067	0.85[EUR][1000 genomes]
rs2449070	0.85[EUR][1000 genomes]
rs2462197	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2462198	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2462199	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2462200	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2462211	0.81[EUR][1000 genomes]
rs2462212	0.81[EUR][1000 genomes]
rs2462223	0.82[EUR][1000 genomes]
rs2462224	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2462225	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2462226	0.81[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs2462227	0.86[EUR][1000 genomes]
rs2462230	0.86[EUR][1000 genomes]
rs2462231	0.86[EUR][1000 genomes]
rs2462232	0.86[EUR][1000 genomes]
rs2462233	0.86[EUR][1000 genomes]
rs2462234	0.85[EUR][1000 genomes]
rs2462235	0.86[EUR][1000 genomes]
rs2462236	0.86[EUR][1000 genomes]
rs2462237	0.86[EUR][1000 genomes]
rs2462238	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2462239	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2462240	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2462241	0.85[EUR][1000 genomes]
rs2462242	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2462244	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470757	0.86[EUR][1000 genomes]
rs2470759	0.86[EUR][1000 genomes]
rs2470760	0.81[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2470762	0.86[EUR][1000 genomes]
rs2470764	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470765	0.83[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470774	0.87[EUR][1000 genomes]
rs2470775	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470777	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470778	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470779	0.86[EUR][1000 genomes]
rs2470780	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes]
rs2470781	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470782	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470783	0.82[EUR][1000 genomes]
rs2470784	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2470786	0.87[EUR][1000 genomes]
rs2470787	0.87[EUR][1000 genomes]
rs2470788	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470790	0.87[EUR][1000 genomes]
rs2470793	0.87[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470796	0.87[EUR][1000 genomes]
rs2470797	0.87[EUR][1000 genomes]
rs2470798	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs2470799	0.82[AFR][1000 genomes];0.85[EUR][1000 genomes]
rs2949166	0.88[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2960187	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs35086114	0.81[EUR][1000 genomes]
rs4241476	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs4241477	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs6440349	0.85[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs951093	0.86[EUR][1000 genomes]
rs9849048	0.81[EUR][1000 genomes]
rs9857396	0.86[AFR][1000 genomes];0.87[EUR][1000 genomes]
rs9876797	0.85[AFR][1000 genomes];0.85[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv591065	chr3:98204198-98766326	Flanking Active TSS Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
2	nsv1007140	chr3:98421229-99202458	Enhancers Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
3	nsv536663	chr3:98421229-99202458	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
4	nsv1007486	chr3:98597738-99249081	Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv980100	chr3:98714787-98766962	Flanking Active TSS Enhancers Strong transcription Genic enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv963577	chr3:98736986-98766962	Weak transcription Enhancers ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv432463	chr3:98751310-98796310	Enhancers Weak transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
8	nsv1004227	chr3:98751371-98803792	Enhancers ZNF genes & repeats Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2470792	ST3GAL6	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:98747000-98753600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived

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