Variant report

Variant	rs6597197
Chromosome Location	chr6:6253017-6253018
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs13204446	0.83[JPT][hapmap]
rs17141916	0.81[CHB][hapmap];0.82[JPT][hapmap];0.82[ASN][1000 genomes]
rs3024365	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3024369	0.81[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs3024370	0.86[GIH][hapmap]
rs3024373	0.81[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs3024378	0.96[CEU][hapmap];0.89[GIH][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3024380	0.96[CEU][hapmap];0.90[GIH][hapmap];0.87[LWK][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap];0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3024381	0.96[CEU][hapmap];0.94[YRI][hapmap];0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs3024382	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3024387	0.96[CEU][hapmap];0.90[GIH][hapmap];0.92[LWK][hapmap];0.86[MEX][hapmap];0.93[MKK][hapmap];0.93[TSI][hapmap];0.94[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3024389	0.96[CEU][hapmap];0.90[GIH][hapmap];0.87[LWK][hapmap];0.86[MEX][hapmap];0.90[MKK][hapmap];0.93[TSI][hapmap];0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3844194	0.83[ASN][1000 genomes]
rs3851511	0.97[ASN][1000 genomes]
rs3892797	0.81[CHB][hapmap];0.83[JPT][hapmap];0.82[ASN][1000 genomes]
rs3895270	0.84[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3895271	0.96[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.83[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56291442	0.82[ASN][1000 genomes]
rs61296735	0.82[ASN][1000 genomes]
rs6936721	0.91[JPT][hapmap];0.96[ASN][1000 genomes]
rs7744744	0.96[CEU][hapmap];1.00[CHB][hapmap];0.92[JPT][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7769467	0.96[CEU][hapmap];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv883421	chr6:6163492-6574384	Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases
2	nsv883422	chr6:6163492-6769930	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	33 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6597197	CDYL	cis	parietal	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:6250400-6262600	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr6:6250800-6258400	Weak transcription	Monocytes-CD14+_RO01746	blood
3	chr6:6251600-6253200	Enhancers	HSMM	muscle
4	chr6:6251800-6253200	Enhancers	HSMMtube	muscle

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