Variant report

Variant	rs1443358
Chromosome Location	chr9:92745240-92745241
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:92743278..92746160-chr9:92749145..92750890,2	MCF-7	breast:
2	chr9:92741195..92742880-chr9:92743389..92745456,2	MCF-7	breast:
3	chr9:92741964..92746302-chr9:92752977..92756296,4	MCF-7	breast:
4	chr9:92743937..92746213-chr9:92746702..92748214,2	MCF-7	breast:

Extended variants
information (count: 23 )
Associated
traits (count: 4 )

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

rs_ID	r²[population]
rs13296044	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];0.80[GIH][hapmap];0.88[JPT][hapmap];0.86[MKK][hapmap];0.95[TSI][hapmap];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1373102	1.00[ASW][hapmap];0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.83[LWK][hapmap];0.88[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1443360	0.86[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35150414	0.82[AMR][1000 genomes]
rs501675	0.82[AMR][1000 genomes]
rs535599	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs557789	0.88[CEU][hapmap];0.83[CHB][hapmap]
rs601472	0.88[CEU][hapmap];0.85[GIH][hapmap];0.87[TSI][hapmap];0.82[AMR][1000 genomes]
rs613212	0.82[AMR][1000 genomes]
rs627985	0.88[CEU][hapmap];0.83[CHB][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs628020	0.88[CEU][hapmap];0.83[CHB][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs633926	0.88[CEU][hapmap];0.83[CHB][hapmap];0.85[GIH][hapmap];0.85[TSI][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs650415	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs650882	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs661232	0.82[AMR][1000 genomes]
rs666603	0.82[AMR][1000 genomes]
rs679273	0.88[CEU][hapmap];0.85[GIH][hapmap];0.87[TSI][hapmap];0.81[AMR][1000 genomes]
rs683669	0.88[CEU][hapmap];0.83[CHB][hapmap];0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs7018766	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7036231	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs704476	0.88[CEU][hapmap];0.82[AMR][1000 genomes]
rs920752	0.83[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.95[ASN][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	nsv893561	chr9:92732368-92802101	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	TF binding region Chromatin interactive region lncRNA miRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:4)

SNP	Gene	Cis/trans	Tissue	Source
rs1443358	LOC440173	cis	parietal	SCAN
rs1443358	CKS2	cis	cerebellum	SCAN
rs1443358	SEMA4D	cis	cerebellum	SCAN
rs1443358	SEMA4D	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:92745000-92752800	Weak transcription	Liver	Liver
2	chr9:92745000-92755400	Weak transcription	Psoas Muscle	Psoas

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