Variant report

Variant	rs6475567
Chromosome Location	chr9:21733644-21733645
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 71 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:66)

rs_ID	r²[population]
rs10217131	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap]
rs10217379	1.00[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs10429489	0.80[AMR][1000 genomes]
rs10511700	0.94[CHB][hapmap];0.93[JPT][hapmap]
rs10757256	0.80[AMR][1000 genomes]
rs10811593	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10811594	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10811606	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10811607	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10811609	0.91[AMR][1000 genomes];0.94[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10811616	0.80[AMR][1000 genomes]
rs10811619	0.80[AMR][1000 genomes]
rs10811624	0.90[CEU][hapmap]
rs10965118	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs10965124	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10965131	0.80[AMR][1000 genomes]
rs10965150	0.90[CEU][hapmap]
rs11496368	0.80[EUR][1000 genomes]
rs12004745	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs12336678	0.80[AMR][1000 genomes]
rs12336734	0.80[AMR][1000 genomes]
rs12337510	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs12348845	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12378675	0.89[CEU][hapmap]
rs13286524	0.80[AMR][1000 genomes]
rs13302653	0.83[CEU][hapmap]
rs1414258	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1414259	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1440992	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1544195	0.90[CEU][hapmap]
rs2039971	0.94[CHB][hapmap];0.86[JPT][hapmap]
rs2282245	0.83[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs3931609	0.83[CEU][hapmap];0.81[MEX][hapmap];0.87[TSI][hapmap]
rs4326466	0.80[AMR][1000 genomes]
rs4375086	1.00[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4543632	1.00[CEU][hapmap];0.94[CHB][hapmap];0.88[CHD][hapmap];1.00[GIH][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs55656405	0.80[AMR][1000 genomes]
rs6475570	0.90[ASN][1000 genomes]
rs6475575	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6475580	0.80[AMR][1000 genomes]
rs6475581	1.00[CEU][hapmap];0.94[CHB][hapmap];0.85[CHD][hapmap];0.80[GIH][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.88[TSI][hapmap];0.80[AMR][1000 genomes]
rs6475582	0.80[AMR][1000 genomes]
rs6475583	1.00[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.80[AMR][1000 genomes]
rs6475584	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap]
rs7027165	0.84[ASN][1000 genomes]
rs7029287	0.91[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap]
rs7040432	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7040895	0.80[AMR][1000 genomes]
rs7042728	0.83[CEU][hapmap];0.83[CHB][hapmap]
rs7042884	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7044007	0.85[ASN][1000 genomes]
rs7045771	0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7846904	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7850447	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7851125	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];0.89[MEX][hapmap];0.82[TSI][hapmap]
rs7860126	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs7866362	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7866533	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs7867176	0.91[CEU][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs7868253	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs7871477	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[CHD][hapmap];0.86[JPT][hapmap];1.00[MEX][hapmap];0.94[TSI][hapmap]
rs7871631	0.80[AMR][1000 genomes]
rs7874112	0.83[CEU][hapmap];0.83[MEX][hapmap];0.87[TSI][hapmap]
rs885518	0.91[CEU][hapmap];0.94[CHB][hapmap];0.86[JPT][hapmap];0.94[MEX][hapmap];0.94[TSI][hapmap]
rs9298826	0.80[AMR][1000 genomes]
rs945263	0.84[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1029634	chr9:21542970-21765286	Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
2	nsv892743	chr9:21675545-21772064	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv892744	chr9:21694039-21746419	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv529609	chr9:21708371-22537069	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
5	esv3450546	chr9:21733559-21733977	Weak transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs6475567	ACER2	cis	cerebellum	SCAN
rs6475567	CDKN2B	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:21729000-21734400	Weak transcription	NHDF-Ad	bronchial
2	chr9:21731000-21741000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links