Variant report

Variant	rs10513486
Chromosome Location	chr3:156052705-156052706
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs1027530	0.94[JPT][hapmap]
rs12629802	0.87[EUR][1000 genomes]
rs12630004	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1375925	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs1375926	0.93[CHB][hapmap];0.84[CHD][hapmap]
rs1874952	0.93[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.93[GIH][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.95[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2122419	0.84[ASW][hapmap];1.00[CHB][hapmap];0.93[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.81[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2167143	0.85[CEU][hapmap];0.94[JPT][hapmap];1.00[MEX][hapmap];0.84[TSI][hapmap];0.80[EUR][1000 genomes]
rs28413487	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3755625	0.87[JPT][hapmap];0.86[TSI][hapmap]
rs3755627	0.86[CHB][hapmap];0.87[JPT][hapmap]
rs3772231	0.86[CHB][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.92[TSI][hapmap];0.87[EUR][1000 genomes]
rs3772233	0.93[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap]
rs3772236	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3772243	0.83[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs3821415	0.86[CHB][hapmap];0.84[CHD][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap]
rs4680258	0.93[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4680259	0.86[CHB][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.89[TSI][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6795493	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7653024	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs882089	0.88[ASW][hapmap];0.93[CEU][hapmap];0.94[JPT][hapmap];0.84[MEX][hapmap];0.86[TSI][hapmap]
rs9874261	0.86[CEU][hapmap];0.86[CHB][hapmap];0.87[JPT][hapmap];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014755	chr3:155889430-156411894	Flanking Active TSS Strong transcription Weak transcription Enhancers Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	40 gene(s)	inside rSNPs	diseases
2	nsv877682	chr3:156019961-156077514	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:156052200-156053200	Enhancers	iPS-18 Cell Line	embryonic stem cell
2	chr3:156052200-156053400	Enhancers	iPS-15b Cell Line	embryonic stem cell
3	chr3:156052400-156052800	Enhancers	H1 Cell Line	embryonic stem cell
4	chr3:156052400-156053600	Enhancers	Stomach Mucosa	stomach
5	chr3:156052600-156052800	Enhancers	Aorta	Aorta
6	chr3:156052600-156053000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr3:156052600-156053000	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr3:156052600-156053000	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr3:156052600-156053000	Enhancers	Rectal Mucosa Donor 31	rectum
10	chr3:156052600-156053200	Enhancers	HUES48 Cell Line	embryonic stem cell
11	chr3:156052600-156053200	Enhancers	HUES6 Cell Line	embryonic stem cell
12	chr3:156052600-156053400	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links