Variant report

Variant	rs2105313
Chromosome Location	chr9:15879801-15879802
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-SNAPC3-6	chr9:15878981-15880761	ucscGeneNc_uc003zmg_2

Extended variants
information (count: 129 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:125)

rs_ID	r²[population]
rs1081243	0.92[EUR][1000 genomes]
rs1081244	0.89[EUR][1000 genomes]
rs1081246	0.92[EUR][1000 genomes]
rs1081247	0.92[EUR][1000 genomes]
rs1169469	0.88[EUR][1000 genomes]
rs1169470	0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1169471	0.92[EUR][1000 genomes]
rs1169472	0.90[EUR][1000 genomes]
rs1169473	0.81[EUR][1000 genomes]
rs1169474	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1169475	0.91[EUR][1000 genomes]
rs1169476	0.92[EUR][1000 genomes]
rs1169477	0.85[EUR][1000 genomes]
rs1169481	0.91[EUR][1000 genomes]
rs1169482	0.82[EUR][1000 genomes]
rs1177610	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1177611	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1184568	0.94[EUR][1000 genomes]
rs1184912	0.85[AFR][1000 genomes];0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1184913	0.91[EUR][1000 genomes]
rs1185652	0.95[AFR][1000 genomes];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1186048	0.91[EUR][1000 genomes]
rs1186387	0.85[EUR][1000 genomes]
rs1328281	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1328287	0.92[ASN][1000 genomes]
rs1341733	0.85[EUR][1000 genomes]
rs1341739	0.87[EUR][1000 genomes]
rs1361607	0.91[EUR][1000 genomes]
rs1361608	0.87[EUR][1000 genomes]
rs1536686	0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1536687	0.84[ASN][1000 genomes]
rs1578556	0.87[EUR][1000 genomes]
rs1578557	0.94[EUR][1000 genomes]
rs1578558	0.94[EUR][1000 genomes]
rs1582200	0.94[EUR][1000 genomes]
rs1752777	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1773046	0.90[EUR][1000 genomes]
rs1773062	0.91[EUR][1000 genomes]
rs1815697	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1891209	0.85[EUR][1000 genomes]
rs1935220	1.00[AFR][1000 genomes];0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1935221	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1935223	0.86[EUR][1000 genomes]
rs1954220	0.90[EUR][1000 genomes]
rs2094519	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2094520	0.85[EUR][1000 genomes]
rs2105314	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2149230	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2182934	0.85[EUR][1000 genomes]
rs2182935	0.87[EUR][1000 genomes]
rs2769714	0.88[EUR][1000 genomes]
rs2769716	0.91[EUR][1000 genomes]
rs2794624	0.95[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2794625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2794626	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794627	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2794629	0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2794631	0.85[EUR][1000 genomes]
rs2794632	0.81[AFR][1000 genomes];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2794633	0.83[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2794638	0.85[EUR][1000 genomes]
rs2987045	0.89[AFR][1000 genomes];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2987046	0.84[EUR][1000 genomes]
rs2987053	0.85[EUR][1000 genomes]
rs2987054	0.86[EUR][1000 genomes]
rs2987057	0.87[EUR][1000 genomes]
rs2987058	0.87[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2987060	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2987061	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs2987062	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2987064	0.84[ASN][1000 genomes]
rs2987065	0.84[EUR][1000 genomes]
rs2995024	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2995025	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3008683	0.85[EUR][1000 genomes]
rs3008684	0.93[ASN][1000 genomes]
rs3008685	0.83[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs3008691	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3008692	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3008693	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3008695	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3008698	0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3008700	0.83[EUR][1000 genomes]
rs6474978	0.93[EUR][1000 genomes]
rs6474979	0.92[EUR][1000 genomes]
rs7028328	0.95[EUR][1000 genomes]
rs7039881	0.93[EUR][1000 genomes]
rs7388793	0.92[EUR][1000 genomes]
rs770190	0.92[EUR][1000 genomes]
rs770192	0.96[EUR][1000 genomes]
rs770193	0.93[EUR][1000 genomes]
rs770194	0.96[EUR][1000 genomes]
rs770195	0.89[EUR][1000 genomes]
rs770196	0.84[EUR][1000 genomes]
rs770197	0.93[EUR][1000 genomes]
rs770198	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs770199	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs770200	0.94[EUR][1000 genomes]
rs770201	0.95[EUR][1000 genomes]
rs770202	0.95[EUR][1000 genomes]
rs770203	0.93[EUR][1000 genomes]
rs770204	0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs770205	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs770206	0.91[EUR][1000 genomes]
rs770207	0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs770210	0.87[EUR][1000 genomes]
rs770212	0.87[EUR][1000 genomes]
rs770214	0.87[EUR][1000 genomes]
rs770217	0.88[EUR][1000 genomes]
rs770218	0.87[EUR][1000 genomes]
rs770219	0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7856877	0.88[EUR][1000 genomes]
rs7860354	0.92[EUR][1000 genomes]
rs7860463	0.90[EUR][1000 genomes]
rs7860856	0.86[EUR][1000 genomes]
rs7861105	0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7861533	0.82[ASN][1000 genomes]
rs7866699	0.82[ASN][1000 genomes]
rs7867018	0.82[ASN][1000 genomes]
rs809493	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs9406546	0.90[EUR][1000 genomes]
rs9407664	0.93[EUR][1000 genomes]
rs9407665	0.93[EUR][1000 genomes]
rs9407668	0.94[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	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
2	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
3	nsv892633	chr9:15604746-15889411	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv1015435	chr9:15841107-15880385	Enhancers ZNF genes & repeats Strong transcription Active TSS Weak transcription Flanking Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:15857800-15885400	Weak transcription	Primary hematopoietic stem cells	blood
2	chr9:15877000-15903400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:15877400-15885800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr9:15877600-15888400	Weak transcription	Pancreas	Pancrea
5	chr9:15879000-15885400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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