Variant report

Variant	rs12713890
Chromosome Location	chr2:77247271-77247272
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:63)

rs_ID	r²[population]
rs10186823	0.83[CEU][hapmap]
rs12713886	0.88[EUR][1000 genomes]
rs12713891	0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13021476	0.89[CEU][hapmap];0.90[EUR][1000 genomes]
rs13033902	0.94[CEU][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap];0.84[EUR][1000 genomes]
rs13034088	0.94[CEU][hapmap];0.94[GIH][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs13388552	0.94[CEU][hapmap];0.90[EUR][1000 genomes]
rs13397044	0.89[CEU][hapmap];0.88[GIH][hapmap]
rs13406560	0.94[EUR][1000 genomes]
rs1345136	0.94[JPT][hapmap]
rs1348824	0.85[JPT][hapmap]
rs1348828	1.00[CEU][hapmap];0.95[EUR][1000 genomes]
rs1348829	0.95[EUR][1000 genomes]
rs1374392	0.89[CEU][hapmap];0.84[CHD][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes]
rs1374394	0.94[CEU][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap]
rs1446689	0.89[CEU][hapmap];0.97[GIH][hapmap]
rs1446690	0.89[CEU][hapmap]
rs1446694	0.89[CEU][hapmap];0.87[EUR][1000 genomes]
rs1446697	0.82[AFR][1000 genomes]
rs1446703	0.85[JPT][hapmap]
rs1446705	0.85[JPT][hapmap]
rs1446706	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs1446713	0.88[EUR][1000 genomes]
rs1446714	0.83[CEU][hapmap];0.95[CHB][hapmap];0.88[EUR][1000 genomes]
rs1446717	0.89[CEU][hapmap];0.89[GIH][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes]
rs1446718	0.89[CEU][hapmap];0.95[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];0.85[JPT][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs1446720	0.89[CEU][hapmap];0.95[CHB][hapmap];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs1542187	1.00[CEU][hapmap];1.00[CHB][hapmap];0.98[CHD][hapmap];0.97[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs17013615	1.00[CEU][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.94[EUR][1000 genomes]
rs17040496	0.89[CEU][hapmap];0.83[CHB][hapmap];0.90[EUR][1000 genomes]
rs17040500	1.00[CEU][hapmap];0.94[GIH][hapmap];0.93[TSI][hapmap];0.95[EUR][1000 genomes]
rs17089	1.00[CEU][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.94[EUR][1000 genomes]
rs1838879	0.90[EUR][1000 genomes]
rs1900342	0.89[CEU][hapmap]
rs1982341	0.89[CEU][hapmap]
rs2044485	0.80[CEU][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs34287182	0.82[EUR][1000 genomes]
rs34577944	0.95[EUR][1000 genomes]
rs35458070	0.95[EUR][1000 genomes]
rs4510248	0.89[CEU][hapmap];0.91[GIH][hapmap]
rs4853290	1.00[CEU][hapmap];0.88[EUR][1000 genomes]
rs58936967	0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6547106	0.89[GIH][hapmap];0.81[MEX][hapmap];0.89[TSI][hapmap];0.86[EUR][1000 genomes]
rs6547107	0.89[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6547108	0.89[CEU][hapmap];0.86[EUR][1000 genomes]
rs6547109	0.89[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6547111	0.89[CEU][hapmap];0.91[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6547113	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6547119	0.83[CEU][hapmap];0.91[GIH][hapmap]
rs6706194	1.00[CEU][hapmap];0.91[EUR][1000 genomes]
rs6724799	0.83[CHB][hapmap];0.85[JPT][hapmap];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6732462	0.85[LWK][hapmap];0.80[MKK][hapmap]
rs6737296	0.89[CEU][hapmap];0.84[CHD][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.90[EUR][1000 genomes]
rs6741095	0.95[EUR][1000 genomes]
rs6750979	0.83[GIH][hapmap];0.82[MEX][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs6754347	0.83[CEU][hapmap]
rs6758707	0.88[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.90[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs72823154	0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7556871	0.88[EUR][1000 genomes]
rs7561189	0.89[CEU][hapmap];0.91[CHB][hapmap];0.91[CHD][hapmap];0.94[GIH][hapmap];0.85[JPT][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap]
rs7569919	0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7569994	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7595678	0.89[CEU][hapmap];0.91[GIH][hapmap];0.93[TSI][hapmap];0.87[EUR][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	nsv834266	chr2:77120236-77287504	Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv949670	chr2:77125218-77712607	Weak transcription Enhancers Bivalent Enhancer Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv519950	chr2:77213103-77256291	Enhancers Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv997284	chr2:77233426-77303198	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv1007408	chr2:77235194-77255152	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:77244800-77248000	Weak transcription	Pancreatic Islets	Pancreatic Islet
2	chr2:77244800-77249600	Weak transcription	H1 Cell Line	embryonic stem cell
3	chr2:77244800-77249600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links