Variant report

Variant	rs16926345
Chromosome Location	chr10:26064077-26064078
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10218959	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11014725	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11014729	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11014744	0.84[ASN][1000 genomes]
rs11014745	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11014746	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12241358	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12248775	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12251368	0.89[ASN][1000 genomes]
rs12258824	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12260808	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12261856	0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12263936	0.89[ASN][1000 genomes]
rs13377122	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16926353	0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2437405	0.89[ASN][1000 genomes]
rs2437409	0.89[ASN][1000 genomes]
rs2442833	0.81[ASN][1000 genomes]
rs2442839	0.89[ASN][1000 genomes]
rs2442851	0.84[ASN][1000 genomes]
rs2505466	0.84[ASN][1000 genomes]
rs2505467	0.84[ASN][1000 genomes]
rs2505498	0.81[ASN][1000 genomes]
rs3099854	0.84[ASN][1000 genomes]
rs4335440	0.91[EUR][1000 genomes]
rs57317460	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs57474623	0.96[EUR][1000 genomes]
rs7070912	0.96[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7089251	0.81[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7093719	0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7100717	0.89[ASN][1000 genomes]
rs723369	0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs723370	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs723371	0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7475986	0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv894974	chr10:26028530-26322783	Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16926345	PTCHD3	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:26056200-26065600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr10:26056800-26064800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
3	chr10:26057200-26065400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
4	chr10:26058800-26065600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
5	chr10:26062800-26064600	Weak transcription	HUES6 Cell Line	embryonic stem cell
6	chr10:26063800-26066000	Enhancers	H1 Cell Line	embryonic stem cell
7	chr10:26064000-26064400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
8	chr10:26064000-26066000	Enhancers	iPS-18 Cell Line	embryonic stem cell
9	chr10:26064000-26066200	Enhancers	iPS-20b Cell Line	embryonic stem cell

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