Variant report

Variant	rs10059955
Chromosome Location	chr5:105425352-105425353
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 58 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs10053772	0.80[ASN][1000 genomes]
rs10054814	0.80[ASN][1000 genomes]
rs10057027	0.82[ASN][1000 genomes]
rs10463575	0.91[ASN][1000 genomes]
rs10477862	0.87[ASN][1000 genomes]
rs10477863	0.87[ASN][1000 genomes]
rs10477864	0.82[ASN][1000 genomes]
rs11242570	0.85[ASN][1000 genomes]
rs12513939	0.85[ASN][1000 genomes]
rs12655354	0.88[ASN][1000 genomes]
rs12658064	0.88[ASN][1000 genomes]
rs12719552	0.80[ASN][1000 genomes]
rs13167678	0.80[ASN][1000 genomes]
rs13180375	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1347404	0.89[ASN][1000 genomes]
rs1369344	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1369345	0.85[ASN][1000 genomes]
rs1435194	0.88[ASN][1000 genomes]
rs1435199	0.88[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1435200	0.80[ASN][1000 genomes]
rs1865508	0.83[AMR][1000 genomes];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1897942	0.88[ASN][1000 genomes]
rs1897943	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2043502	0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2082766	0.85[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35726927	0.83[ASN][1000 genomes]
rs4260640	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4260641	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4457046	0.88[ASN][1000 genomes]
rs4616869	0.84[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4957922	0.88[ASN][1000 genomes]
rs56219720	0.90[ASN][1000 genomes]
rs57358218	0.95[ASN][1000 genomes]
rs62377560	0.87[ASN][1000 genomes]
rs7708750	0.91[ASN][1000 genomes]
rs7712613	0.85[ASN][1000 genomes]
rs7731914	0.87[AFR][1000 genomes];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7732235	0.81[ASN][1000 genomes]
rs7734465	0.85[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:19 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv882653	chr5:105272932-105527995	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
2	nsv882654	chr5:105297529-105453357	Enhancers Weak transcription Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
3	nsv882655	chr5:105308346-105663646	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv882656	chr5:105326521-105453357	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv882657	chr5:105326521-105507543	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
6	nsv830438	chr5:105336390-105498691	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
7	nsv882658	chr5:105350426-105453357	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv599285	chr5:105355890-106271223	Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv882659	chr5:105358229-105527995	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
10	nsv882660	chr5:105358229-105685009	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
11	nsv882662	chr5:105377638-105453357	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
12	nsv882663	chr5:105377638-105507543	Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Enhancers Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv882664	chr5:105377638-105527995	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
14	nsv882665	chr5:105377638-105540934	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	nsv882666	chr5:105377638-105604520	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	nsv882667	chr5:105398475-105507543	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
17	nsv599290	chr5:105398475-105568943	Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Active TSS Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
18	nsv882668	chr5:105409644-105568943	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
19	nsv980992	chr5:105420542-105428944	Weak transcription Enhancers Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10059955	FBXL17	cis	parietal	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:105422000-105425400	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr5:105423000-105425400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr5:105423000-105425400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
4	chr5:105423000-105425600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
5	chr5:105423200-105425400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
6	chr5:105424000-105425600	Weak transcription	HUES64 Cell Line	embryonic stem cell
7	chr5:105424600-105425600	Weak transcription	HUES48 Cell Line	embryonic stem cell
8	chr5:105424600-105425800	Weak transcription	HUES6 Cell Line	embryonic stem cell

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