Variant report

Variant	rs9874260
Chromosome Location	chr3:134659551-134659552
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:24)

rs_ID	r²[population]
rs10935143	0.84[CHD][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs1870196	0.86[CEU][hapmap]
rs2045451	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3772657	0.91[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs3772658	0.86[CEU][hapmap];0.86[CHB][hapmap];1.00[JPT][hapmap]
rs3940695	0.86[CHB][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4955460	1.00[ASW][hapmap];0.95[CEU][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.89[LWK][hapmap];0.88[MEX][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6769854	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs6775023	0.98[ASN][1000 genomes]
rs6776308	0.90[CEU][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6782004	0.80[ASW][hapmap];0.91[CEU][hapmap];0.89[CHD][hapmap];0.91[GIH][hapmap];0.84[MEX][hapmap];0.98[TSI][hapmap];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6788931	0.82[CHD][hapmap]
rs6789372	0.82[CEU][hapmap]
rs6799629	0.98[ASN][1000 genomes]
rs6799875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6801218	0.88[CHB][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.98[ASN][1000 genomes]
rs7636391	0.98[ASN][1000 genomes]
rs7636504	0.82[TSI][hapmap]
rs7650345	0.82[CHD][hapmap]
rs875984	0.81[CEU][hapmap]
rs936325	0.86[CEU][hapmap];0.86[CHD][hapmap];0.91[GIH][hapmap];0.80[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs975148	0.86[CHB][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];0.98[AMR][1000 genomes];0.97[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9818859	1.00[ASW][hapmap];0.95[CEU][hapmap];0.82[CHD][hapmap];0.95[GIH][hapmap];0.89[LWK][hapmap];0.88[MEX][hapmap];0.92[MKK][hapmap];0.98[TSI][hapmap];0.96[YRI][hapmap];0.85[AFR][1000 genomes];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9868665	0.86[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1009634	chr3:134543259-134820208	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv536720	chr3:134543259-134820208	Enhancers Weak transcription Strong transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv1000277	chr3:134546080-134970837	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:9 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:134650600-134660600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr3:134656600-134673000	Weak transcription	GM12878-XiMat	blood
3	chr3:134657800-134660800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr3:134658000-134659600	Bivalent Enhancer	HUES48 Cell Line	embryonic stem cell
5	chr3:134658200-134659600	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr3:134658200-134669000	Weak transcription	Fetal Brain Female	brain
7	chr3:134658600-134660600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr3:134659400-134660600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr3:134659400-134660800	Weak transcription	Breast Myoepithelial Primary Cells	Breast

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