Variant report

Variant	rs13169680
Chromosome Location	chr5:106628148-106628149
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:52)

rs_ID	r²[population]
rs10058308	1.00[EUR][1000 genomes]
rs10062445	1.00[EUR][1000 genomes]
rs10077806	1.00[EUR][1000 genomes]
rs10515370	1.00[ASN][1000 genomes]
rs10515372	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11948860	1.00[ASN][1000 genomes]
rs13163748	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13165897	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13167605	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13179809	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13179824	1.00[EUR][1000 genomes]
rs13184636	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13184643	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13184806	0.96[AMR][1000 genomes];0.86[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13186418	1.00[ASN][1000 genomes]
rs17159641	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159693	0.99[EUR][1000 genomes]
rs17159727	0.81[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159745	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17159751	1.00[ASN][1000 genomes]
rs17343335	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17343762	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17400404	1.00[ASN][1000 genomes]
rs17401032	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17402238	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17403350	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1895462	0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34319558	0.83[EUR][1000 genomes]
rs35307227	1.00[EUR][1000 genomes]
rs35709847	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35740714	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35748495	1.00[ASN][1000 genomes]
rs35775035	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55849939	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56283997	1.00[ASN][1000 genomes]
rs56852743	1.00[EUR][1000 genomes]
rs60635486	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6596736	1.00[EUR][1000 genomes]
rs66460437	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67504033	1.00[ASN][1000 genomes]
rs67878207	0.83[EUR][1000 genomes]
rs6897756	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72784111	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72784113	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs765075	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7701101	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7711216	1.00[ASN][1000 genomes]
rs7711298	0.83[EUR][1000 genomes]
rs7730647	0.80[EUR][1000 genomes]
rs7735115	0.99[EUR][1000 genomes]
rs9327996	1.00[EUR][1000 genomes]
rs9327997	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1030118	chr5:106006097-106847949	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent Enhancer Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv823170	chr5:106326293-106673695	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv1034276	chr5:106461538-106944163	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv537851	chr5:106461538-106944163	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:106621800-106636600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:106625800-106629600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
3	chr5:106626200-106629400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
4	chr5:106626600-106629000	Weak transcription	Fetal Heart	heart
5	chr5:106626600-106629400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr5:106626600-106630000	Weak transcription	Small Intestine	intestine
7	chr5:106627000-106629800	Weak transcription	Fetal Kidney	kidney
8	chr5:106627200-106628800	Weak transcription	Fetal Intestine Small	intestine
9	chr5:106627200-106629200	Weak transcription	Duodenum Mucosa	Duodenum
10	chr5:106627200-106629600	Weak transcription	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links