Variant report

Variant	rs9351950
Chromosome Location	chr6:73582444-73582445
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10805969	0.87[CEU][hapmap];0.82[CHB][hapmap];0.87[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11756197	0.87[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12526205	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12664704	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16882996	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17800259	0.83[CEU][hapmap];0.88[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.83[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1891396	0.85[ASW][hapmap];0.84[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.94[JPT][hapmap];0.89[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1891398	0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1935526	0.84[CHB][hapmap];0.90[CHD][hapmap]
rs2796005	0.87[GIH][hapmap]
rs2840795	0.87[GIH][hapmap]
rs2882328	0.87[CHD][hapmap]
rs2995346	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3005769	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.86[MKK][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3763159	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[MEX][hapmap];0.98[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62412473	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6908756	0.82[CEU][hapmap];0.87[CHB][hapmap];0.87[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6909241	0.83[CEU][hapmap];0.88[CHB][hapmap];0.83[JPT][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6924175	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6924280	0.84[CHB][hapmap];0.90[CHD][hapmap]
rs6929515	0.84[CHD][hapmap]
rs6930157	0.83[CEU][hapmap];0.88[CHB][hapmap];0.86[CHD][hapmap];0.90[GIH][hapmap];0.83[JPT][hapmap];0.84[MEX][hapmap];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9342980	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9342981	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9342986	0.83[CHB][hapmap]
rs9350473	1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9351951	0.85[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9351956	0.86[CHD][hapmap]
rs9360608	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9360610	0.82[CEU][hapmap];0.88[CHB][hapmap];0.86[CHD][hapmap];0.90[GIH][hapmap];0.83[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9360611	0.83[CEU][hapmap];0.88[CHB][hapmap];0.87[CHD][hapmap];0.90[GIH][hapmap];0.83[JPT][hapmap];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9360612	0.88[CHB][hapmap];0.83[JPT][hapmap];0.87[ASN][1000 genomes]
rs9360616	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv830691	chr6:73530978-73743648	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	3 gene(s)	inside rSNPs	diseases
2	nsv470834	chr6:73546750-73596605	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
3	nsv886155	chr6:73551937-73649330	Enhancers Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases
4	nsv886156	chr6:73578415-73603675	Weak transcription Enhancers Strong transcription ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs9351950	SMAP1	cis	parietal	SCAN
rs9351950	MYO6	cis	cerebellum	SCAN

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:73572000-73590200	Weak transcription	GM12878-XiMat	blood
2	chr6:73572600-73583800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr6:73575800-73595400	Weak transcription	Primary hematopoietic stem cells short term culture	blood
4	chr6:73576600-73584400	Weak transcription	Skeletal Muscle Female	skeletal muscle
5	chr6:73578400-73584200	Weak transcription	Psoas Muscle	Psoas
6	chr6:73580000-73595400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links