Variant report

Variant	rs1374392
Chromosome Location	chr2:77215388-77215389
allele	C/T
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:64)

rs_ID	r²[population]
rs12713886	0.96[EUR][1000 genomes]
rs12713890	0.89[CEU][hapmap];0.84[CHD][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes]
rs12713891	0.91[EUR][1000 genomes]
rs13021476	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs13033902	0.95[CEU][hapmap];0.93[TSI][hapmap];0.83[EUR][1000 genomes]
rs13034088	0.95[CEU][hapmap];0.86[TSI][hapmap];0.82[EUR][1000 genomes]
rs13388552	0.95[CEU][hapmap];0.93[EUR][1000 genomes]
rs13397044	0.85[CEU][hapmap]
rs13406560	0.88[EUR][1000 genomes]
rs1345136	0.83[CHB][hapmap]
rs1348828	0.90[CEU][hapmap];0.87[EUR][1000 genomes]
rs1348829	0.87[EUR][1000 genomes]
rs1348831	0.94[JPT][hapmap]
rs1374394	0.95[CEU][hapmap];1.00[TSI][hapmap]
rs1446689	0.85[CEU][hapmap]
rs1446690	0.85[CEU][hapmap]
rs1446694	0.90[CEU][hapmap];0.85[EUR][1000 genomes]
rs1446698	0.86[JPT][hapmap]
rs1446701	0.83[JPT][hapmap]
rs1446703	0.85[CHB][hapmap]
rs1446705	0.85[CHB][hapmap]
rs1446706	0.90[CEU][hapmap];0.88[EUR][1000 genomes]
rs1446707	0.94[JPT][hapmap]
rs1446713	0.92[EUR][1000 genomes]
rs1446714	0.95[CEU][hapmap];0.82[CHB][hapmap];0.92[EUR][1000 genomes]
rs1446717	1.00[CEU][hapmap];1.00[TSI][hapmap];0.96[EUR][1000 genomes]
rs1446718	1.00[ASW][hapmap];1.00[CEU][hapmap];0.82[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap];0.98[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1446720	1.00[CEU][hapmap];0.85[CHB][hapmap];0.96[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs1542187	0.90[CEU][hapmap];0.82[CHD][hapmap];0.82[MEX][hapmap];0.89[TSI][hapmap]
rs17013615	0.90[CEU][hapmap];0.96[TSI][hapmap];0.88[EUR][1000 genomes]
rs17040496	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs17040500	0.90[CEU][hapmap];0.96[TSI][hapmap];0.87[EUR][1000 genomes]
rs17089	0.90[CEU][hapmap];0.96[TSI][hapmap];0.86[EUR][1000 genomes]
rs1838879	0.91[EUR][1000 genomes]
rs1900342	0.85[CEU][hapmap]
rs1982341	0.85[CEU][hapmap]
rs2044485	0.90[CEU][hapmap];0.82[CHD][hapmap];0.97[GIH][hapmap];0.83[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34577944	0.87[EUR][1000 genomes]
rs35458070	0.87[EUR][1000 genomes]
rs4510248	0.85[CEU][hapmap]
rs4853290	0.90[CEU][hapmap];0.85[EUR][1000 genomes]
rs58936967	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6547106	0.88[ASW][hapmap];0.85[CEU][hapmap];0.82[LWK][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.86[YRI][hapmap];0.82[AFR][1000 genomes];0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6547107	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap];0.86[YRI][hapmap];0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6547108	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6547109	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6547111	1.00[CEU][hapmap];0.87[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6547113	0.90[CEU][hapmap];0.90[EUR][1000 genomes]
rs6547114	0.94[JPT][hapmap]
rs6547115	0.81[JPT][hapmap]
rs6706194	0.86[CEU][hapmap];0.90[EUR][1000 genomes]
rs6724799	0.89[EUR][1000 genomes]
rs6737296	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6741095	0.87[EUR][1000 genomes]
rs6750979	0.86[CEU][hapmap];0.91[MEX][hapmap];0.86[TSI][hapmap];0.92[EUR][1000 genomes]
rs6758707	1.00[CEU][hapmap];0.86[CHB][hapmap];0.84[JPT][hapmap];0.96[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs727000	0.83[JPT][hapmap]
rs72823154	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7556871	0.92[EUR][1000 genomes]
rs7561189	0.94[ASW][hapmap];1.00[CEU][hapmap];0.87[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.93[YRI][hapmap]
rs7569919	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7569994	0.85[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7595678	0.90[CEU][hapmap];0.96[TSI][hapmap];0.85[EUR][1000 genomes]
rs7597923	0.83[JPT][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	esv2752990	chr2:77038541-77217310	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	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
3	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
4	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

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:77213600-77215400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
2	chr2:77214000-77220400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr2:77214200-77217400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links