Variant report

Variant	rs1926489
Chromosome Location	chr13:92667989-92667990
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 116 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs11839178	0.86[ASN][1000 genomes]
rs12869256	0.82[ASN][1000 genomes]
rs1359669	0.81[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs1411514	0.85[CHB][hapmap]
rs1411516	0.90[CHB][hapmap]
rs1411517	0.90[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];0.83[MEX][hapmap]
rs1411742	0.81[CEU][hapmap];0.88[GIH][hapmap]
rs1411744	0.81[CEU][hapmap]
rs1536368	0.85[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1536369	0.96[CEU][hapmap];0.90[CHB][hapmap];0.95[JPT][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1547656	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap]
rs1571066	0.81[CEU][hapmap]
rs1571596	0.85[CHB][hapmap];0.85[CHD][hapmap]
rs1831011	0.88[GIH][hapmap];0.85[TSI][hapmap]
rs1887116	0.81[CEU][hapmap]
rs1977398	0.84[CEU][hapmap];0.85[GIH][hapmap]
rs1977399	0.81[CEU][hapmap]
rs1977400	0.81[CEU][hapmap]
rs2065194	0.90[CHB][hapmap]
rs2104519	0.92[CEU][hapmap]
rs2148446	0.92[CEU][hapmap];0.93[GIH][hapmap];0.85[TSI][hapmap]
rs2352192	0.82[LWK][hapmap];0.82[YRI][hapmap]
rs2352195	0.81[CHD][hapmap]
rs2352199	0.85[CHB][hapmap];0.84[CHD][hapmap]
rs2352487	0.92[CEU][hapmap]
rs2882954	0.81[CEU][hapmap];0.88[GIH][hapmap]
rs4126972	0.81[CEU][hapmap]
rs4773655	0.85[CHB][hapmap];0.85[CHD][hapmap]
rs4773656	0.85[CHB][hapmap]
rs4773657	0.89[CHB][hapmap];0.84[CHD][hapmap];0.95[GIH][hapmap];0.88[MKK][hapmap];0.82[YRI][hapmap]
rs4773661	0.92[CEU][hapmap];0.90[GIH][hapmap];0.85[TSI][hapmap]
rs4773666	0.92[CEU][hapmap];0.93[GIH][hapmap];0.87[TSI][hapmap]
rs6492567	0.80[CEU][hapmap];0.90[CHB][hapmap]
rs6492575	0.83[CEU][hapmap]
rs6492576	0.81[CEU][hapmap]
rs6492579	0.81[CEU][hapmap]
rs6492582	0.81[CEU][hapmap];0.86[GIH][hapmap]
rs6492583	0.81[CEU][hapmap]
rs6492584	0.81[CEU][hapmap]
rs7319605	0.89[CHB][hapmap]
rs7321234	0.80[CEU][hapmap]
rs7321674	0.85[CHB][hapmap];0.85[CHD][hapmap]
rs7322610	0.92[CEU][hapmap];0.90[GIH][hapmap];0.85[TSI][hapmap]
rs7325116	0.85[CHB][hapmap]
rs7327242	0.81[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs7327753	0.83[CEU][hapmap];0.90[CHB][hapmap];0.94[JPT][hapmap]
rs7331302	0.81[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap]
rs7335849	0.96[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]
rs7339088	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs764586	0.81[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs7982480	0.90[CHB][hapmap]
rs7983229	0.81[CEU][hapmap]
rs7983259	0.95[CHB][hapmap]
rs7983268	0.81[CEU][hapmap]
rs7985989	0.86[ASN][1000 genomes]
rs7986010	0.81[CEU][hapmap];0.88[GIH][hapmap]
rs7986569	0.81[CEU][hapmap]
rs7986588	0.92[CEU][hapmap];0.88[GIH][hapmap];0.83[TSI][hapmap]
rs7986596	0.90[CHB][hapmap];0.85[CHD][hapmap];0.93[GIH][hapmap];0.83[MEX][hapmap]
rs7986709	0.92[CEU][hapmap];0.88[GIH][hapmap];0.81[TSI][hapmap]
rs7987342	0.81[CEU][hapmap];0.90[CHB][hapmap];0.81[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap]
rs7988216	0.81[CEU][hapmap];0.88[GIH][hapmap]
rs7989318	0.81[CEU][hapmap]
rs7989697	0.90[CHB][hapmap];0.87[CHD][hapmap];0.82[MEX][hapmap];0.86[TSI][hapmap]
rs7990662	0.92[CEU][hapmap]
rs7992170	0.88[GIH][hapmap]
rs7993328	0.81[CEU][hapmap];0.93[GIH][hapmap];0.84[JPT][hapmap]
rs7993987	0.81[CEU][hapmap]
rs7994471	0.92[CEU][hapmap]
rs7996100	0.81[CEU][hapmap];0.88[GIH][hapmap]
rs7997002	0.83[GIH][hapmap]
rs8002251	0.81[CEU][hapmap]
rs9301763	0.84[CHD][hapmap]
rs9301765	0.90[CHB][hapmap]
rs9301771	0.80[ASN][1000 genomes]
rs9301772	0.81[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap]
rs9301773	0.81[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap]
rs9515998	0.90[CHB][hapmap];0.90[YRI][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9516008	0.92[CEU][hapmap];0.90[GIH][hapmap];0.85[TSI][hapmap]
rs9516013	0.92[CEU][hapmap]
rs9523453	0.85[CHB][hapmap];0.90[YRI][hapmap]
rs9523454	0.84[CHB][hapmap]
rs9523455	0.85[CHB][hapmap];0.85[CHD][hapmap]
rs9523458	0.90[CHB][hapmap];0.81[CHD][hapmap];0.95[GIH][hapmap]
rs9523466	0.90[CHB][hapmap]
rs9523467	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs9523472	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9523473	0.85[CHB][hapmap]
rs9523474	0.80[CEU][hapmap];0.90[CHB][hapmap];0.90[YRI][hapmap]
rs9523482	0.87[CHB][hapmap];0.87[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.93[TSI][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9523493	0.81[CEU][hapmap]
rs9523495	0.83[CHB][hapmap]
rs9523496	0.81[CEU][hapmap]
rs9523498	0.80[CEU][hapmap];0.88[GIH][hapmap]
rs9523501	0.92[CEU][hapmap];0.87[TSI][hapmap]
rs9523505	0.92[CEU][hapmap]
rs9523508	0.81[CEU][hapmap]
rs9556140	0.86[ASN][1000 genomes]
rs9556141	0.81[CEU][hapmap];0.90[CHB][hapmap];0.81[CHD][hapmap];0.90[GIH][hapmap];1.00[JPT][hapmap]
rs9556148	0.88[GIH][hapmap]
rs9560895	0.90[CHB][hapmap];1.00[YRI][hapmap]
rs9560898	0.85[CHB][hapmap];0.84[CHD][hapmap]
rs9560900	0.90[CHB][hapmap];0.95[JPT][hapmap]
rs9560901	0.90[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs9560903	0.81[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap]
rs9583992	0.80[ASN][1000 genomes]
rs9589409	0.85[ASN][1000 genomes]
rs9589411	0.81[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378326	chr13:92445514-92816367	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	esv2756005	chr13:92584199-93080799	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv562722	chr13:92607374-92733984	Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv900887	chr13:92651148-92745416	Weak transcription Enhancers Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv900888	chr13:92651148-92748938	Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv900889	chr13:92651148-92772499	Enhancers Active TSS Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv900890	chr13:92651148-92808689	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv1049238	chr13:92667284-92717880	Enhancers Weak transcription Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1926489	GPC5	cis	cerebellum	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links