Variant report

Variant	rs13169109
Chromosome Location	chr5:8943532-8943533
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 134 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:118)

rs_ID	r²[population]
rs10038936	0.80[EUR][1000 genomes]
rs10040864	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10056871	0.80[EUR][1000 genomes]
rs10058520	0.80[EUR][1000 genomes]
rs10062754	0.80[EUR][1000 genomes]
rs10512999	0.80[EUR][1000 genomes]
rs11949503	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11955429	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12186849	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12513755	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12521690	0.80[EUR][1000 genomes]
rs13155565	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13157678	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13160595	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13165792	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13166892	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13168801	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13170524	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13175700	0.80[EUR][1000 genomes]
rs13180198	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13181039	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13181188	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13185206	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13185652	0.80[EUR][1000 genomes]
rs13186994	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13188103	0.80[EUR][1000 genomes]
rs13189384	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13355363	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13359910	0.80[EUR][1000 genomes]
rs1585204	0.80[EUR][1000 genomes]
rs16881756	0.80[EUR][1000 genomes]
rs1902806	0.80[EUR][1000 genomes]
rs1947583	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1947586	0.80[EUR][1000 genomes]
rs2219397	0.80[EUR][1000 genomes]
rs2219398	0.80[EUR][1000 genomes]
rs2388008	0.80[EUR][1000 genomes]
rs2962650	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2962651	0.86[EUR][1000 genomes]
rs2962654	0.85[EUR][1000 genomes]
rs2962717	0.81[EUR][1000 genomes]
rs2962724	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2962733	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2962735	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2963324	0.85[EUR][1000 genomes]
rs2963325	0.84[EUR][1000 genomes]
rs2963326	0.85[EUR][1000 genomes]
rs2963327	0.85[EUR][1000 genomes]
rs2963337	0.84[EUR][1000 genomes]
rs2963363	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2963370	0.88[EUR][1000 genomes]
rs2963371	0.87[EUR][1000 genomes]
rs2963375	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2963376	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2963380	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs2963384	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs34108904	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34251442	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34352770	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34626780	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34814654	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34958715	0.80[EUR][1000 genomes]
rs35376107	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35495516	0.98[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35951584	0.89[AFR][1000 genomes];0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs36068583	0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs36075104	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs3921964	0.80[EUR][1000 genomes]
rs4431316	0.80[EUR][1000 genomes]
rs4432854	0.80[EUR][1000 genomes]
rs4495147	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4505924	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4526080	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4563593	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4585412	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4627964	0.80[EUR][1000 genomes]
rs58854317	0.80[EUR][1000 genomes]
rs59676981	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6555580	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6555581	0.91[EUR][1000 genomes]
rs6555583	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6555585	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6555586	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6555587	0.80[EUR][1000 genomes]
rs6555588	0.80[EUR][1000 genomes]
rs6861103	0.96[AFR][1000 genomes];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs6861946	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6862506	0.80[EUR][1000 genomes]
rs6862593	0.98[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6863266	0.80[EUR][1000 genomes]
rs6866047	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6866139	0.80[EUR][1000 genomes]
rs6869307	0.86[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6869638	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6870017	0.80[EUR][1000 genomes]
rs6870451	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6870477	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6871960	0.80[EUR][1000 genomes]
rs6872524	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6876180	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6877048	0.80[EUR][1000 genomes]
rs6880494	0.80[EUR][1000 genomes]
rs6880574	0.80[EUR][1000 genomes]
rs6883368	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6883897	0.80[EUR][1000 genomes]
rs6884096	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6884293	0.80[EUR][1000 genomes]
rs6884680	0.80[EUR][1000 genomes]
rs6885789	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6888819	0.96[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6894834	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs71611354	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7723950	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7726068	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7728475	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7735641	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs9313264	0.80[EUR][1000 genomes]
rs9313265	0.80[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:16 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv881438	chr5:8728874-9695667	Enhancers Genic enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	21 gene(s)	inside rSNPs	diseases
2	esv3492014	chr5:8749469-9004066	Enhancers ZNF genes & repeats Bivalent/Poised TSS Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	esv3492015	chr5:8749469-9004066	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
4	nsv461944	chr5:8758041-9209831	Weak transcription Enhancers ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
5	nsv597069	chr5:8758041-9209831	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	8 gene(s)	inside rSNPs	diseases
6	nsv1016937	chr5:8824417-9402871	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
7	nsv537638	chr5:8824417-9402871	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
8	nsv918004	chr5:8824417-9402871	Weak transcription Enhancers Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	9 gene(s)	inside rSNPs	diseases
9	nsv830199	chr5:8855056-9024096	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	nsv482764	chr5:8906261-9056262	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	2 gene(s)	inside rSNPs	diseases
11	nsv1016483	chr5:8908533-8978530	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
12	nsv1020587	chr5:8910149-8976370	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
13	nsv537639	chr5:8910149-8976370	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv1026907	chr5:8929514-8958258	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	nsv969990	chr5:8934758-8947357	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	n/a	n/a	inside rSNPs	diseases
16	esv3364860	chr5:8936001-8950897	Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:8941800-8943600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr5:8943400-8943800	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
3	chr5:8943400-8944200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr5:8943400-8944200	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr5:8943400-8944400	Enhancers	Muscle Satellite Cultured Cells	--
6	chr5:8943400-8944400	Enhancers	Osteobl	bone
7	chr5:8943400-8944600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr5:8943400-8944600	Enhancers	NHDF-Ad	bronchial
9	chr5:8943400-8944800	Enhancers	NHLF	lung

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links