Variant report

Variant	rs3860623
Chromosome Location	chr4:62714278-62714279
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10021525	0.89[CEU][hapmap];0.80[GIH][hapmap];0.88[TSI][hapmap]
rs10021694	0.89[CEU][hapmap];0.80[GIH][hapmap];0.88[TSI][hapmap]
rs10446786	0.87[GIH][hapmap]
rs17292058	0.94[ASW][hapmap];0.94[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];0.95[JPT][hapmap];1.00[LWK][hapmap];0.96[MEX][hapmap];1.00[TSI][hapmap];0.96[YRI][hapmap];0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1839614	0.85[EUR][1000 genomes]
rs1868789	0.85[EUR][1000 genomes]
rs2013374	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs2122641	0.84[EUR][1000 genomes]
rs2122642	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs2345041	0.89[CEU][hapmap];0.80[GIH][hapmap];0.86[MEX][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes]
rs28421285	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2881027	0.81[JPT][hapmap]
rs34764145	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs35946366	0.84[EUR][1000 genomes]
rs4860434	0.86[JPT][hapmap]
rs6551658	0.84[EUR][1000 genomes]
rs6551660	0.89[CEU][hapmap]
rs6551662	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6845019	0.89[CEU][hapmap];0.81[GIH][hapmap];0.87[MEX][hapmap];0.97[TSI][hapmap];0.85[EUR][1000 genomes]
rs7695134	0.89[CEU][hapmap];0.81[GIH][hapmap]
rs990640	0.89[CEU][hapmap];0.85[EUR][1000 genomes]
rs9990553	0.89[CEU][hapmap];0.80[GIH][hapmap];0.88[TSI][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv461377	chr4:62368762-62883431	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv594328	chr4:62368762-62883431	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv829949	chr4:62615637-62761629	Weak transcription Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv428760	chr4:62649399-62824542	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	esv3323885	chr4:62712582-62715130	Weak transcription ZNF genes & repeats Enhancers	n/a	n/a	inside rSNPs	diseases
6	esv3346334	chr4:62712682-62714930	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
7	esv3404949	chr4:62712957-62714355	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:62707800-62718600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
2	chr4:62708800-62718800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr4:62712600-62720600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr4:62714200-62718600	Weak transcription	ES-I3 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links