Variant report

Variant	rs1925164
Chromosome Location	chr6:56127267-56127268
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:56120518..56123285-chr6:56126655..56128230,2	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs12528835	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1925140	0.85[ASW][hapmap];0.93[LWK][hapmap];0.82[AFR][1000 genomes]
rs1925157	0.82[CHB][hapmap];0.89[JPT][hapmap]
rs2147696	0.86[AFR][1000 genomes]
rs2397214	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];0.87[MKK][hapmap];0.86[TSI][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2894834	0.82[AFR][1000 genomes]
rs3857613	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs4355611	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62411896	0.86[AFR][1000 genomes]
rs6902532	0.84[AFR][1000 genomes]
rs6905216	0.86[AFR][1000 genomes]
rs6923130	0.85[ASW][hapmap];0.93[LWK][hapmap];0.86[AFR][1000 genomes]
rs7757732	0.80[AFR][1000 genomes]
rs7760380	0.86[LWK][hapmap]
rs7765410	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7769092	0.91[CHB][hapmap];1.00[JPT][hapmap];0.88[ASN][1000 genomes]
rs9296837	0.86[AFR][1000 genomes]
rs9357898	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs9357899	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9396187	0.94[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9464370	0.80[AFR][1000 genomes]
rs9475647	0.80[AFR][1000 genomes]
rs9475649	0.81[AFR][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	nsv885911	chr6:55789704-56143231	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1925164	COL21A1	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:56120800-56129800	Weak transcription	Aorta	Aorta
2	chr6:56125000-56127600	Weak transcription	Fetal Kidney	kidney
3	chr6:56125000-56127800	Weak transcription	HSMM	muscle
4	chr6:56125000-56128200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr6:56125200-56127600	Weak transcription	Fetal Lung	lung
6	chr6:56127000-56130000	Enhancers	Fetal Stomach	stomach
7	chr6:56127200-56128400	Enhancers	Fetal Muscle Leg	muscle

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