Variant report

Variant	rs17025209
Chromosome Location	chr4:97161412-97161413
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs11932384	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12642471	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs12644982	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17025493	0.86[AMR][1000 genomes]
rs1847964	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs1847966	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs1948912	0.85[AFR][1000 genomes];0.90[AMR][1000 genomes]
rs2113973	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4146410	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs4146411	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes]
rs4293790	1.00[YRI][hapmap]
rs4343731	0.92[AFR][1000 genomes];0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs4699503	0.83[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs55680326	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs55847611	0.88[AFR][1000 genomes];0.93[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs60275360	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs6820075	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs72880179	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72880182	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs72883800	0.85[AFR][1000 genomes];0.93[AMR][1000 genomes]
rs72885446	0.86[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830013	chr4:97033125-97204291	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv1003868	chr4:97068155-97222544	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv470057	chr4:97104880-97311657	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv461589	chr4:97104881-97311657	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv594916	chr4:97104881-97311657	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv879631	chr4:97114706-97263153	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
7	nsv879632	chr4:97118539-97308914	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
8	nsv879633	chr4:97125086-97263153	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	esv2763381	chr4:97140746-97193871	Enhancers Weak transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17025209	METAP1	cis	cerebellum	SCAN
rs17025209	C4orf17	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:97161200-97161600	Enhancers	Fetal Lung	lung

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