Variant report

Variant	rs55745046
Chromosome Location	chr9:93456552-93456553
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

rSNPs within LD-proxies of this variant (count:29)

rs_ID	r²[population]
rs10512201	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993628	0.95[ASN][1000 genomes]
rs10993629	0.95[ASN][1000 genomes]
rs10993637	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993648	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993649	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993650	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993651	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10993653	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10993654	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10993655	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10993670	0.90[EUR][1000 genomes]
rs11496668	0.86[EUR][1000 genomes]
rs11521686	0.91[EUR][1000 genomes]
rs12551476	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs13283061	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13288981	0.88[EUR][1000 genomes]
rs1469459	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs34518167	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs34660475	0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35649391	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs35997145	0.90[EUR][1000 genomes]
rs55701340	0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55751003	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55860818	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55956756	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56374184	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62560061	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7470845	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1041278	chr9:92965701-93560454	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv1046989	chr9:93353987-93800416	Transcr. at gene 5' and 3' Weak transcription Active TSS Strong transcription Enhancers Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
3	nsv482757	chr9:93356095-93543903	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv6610	chr9:93428408-93473346	Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	esv3394786	chr9:93455032-93458330	Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
6	esv3415696	chr9:93455232-93458130	Active TSS ZNF genes & repeats Weak transcription Bivalent/Poised TSS	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55745046	SYK	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:93456400-93456600	Bivalent/Poised TSS	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr9:93456400-93456600	ZNF genes & repeats	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:93456400-93457200	ZNF genes & repeats	Fetal Kidney	kidney

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