Variant report

Variant	rs3798221
Chromosome Location	chr6:160998148-160998149
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 109 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:85)

rs_ID	r²[population]
rs10945677	0.92[AFR][1000 genomes];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10945682	0.83[ASN][1000 genomes]
rs10945683	0.83[ASN][1000 genomes]
rs12175867	0.87[ASN][1000 genomes]
rs12665784	0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13192132	0.88[ASN][1000 genomes]
rs13202636	0.84[ASN][1000 genomes]
rs1406889	0.82[ASN][1000 genomes]
rs1569933	0.83[ASN][1000 genomes]
rs2983236	0.83[ASN][1000 genomes]
rs34600300	0.96[ASN][1000 genomes]
rs34620808	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs35189165	0.87[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35358746	0.91[AFR][1000 genomes];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs35600881	0.87[ASN][1000 genomes]
rs3902910	0.97[ASN][1000 genomes]
rs4073498	0.97[ASN][1000 genomes]
rs41272044	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62441908	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62441936	0.97[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62442784	0.83[ASN][1000 genomes]
rs6455688	0.89[ASN][1000 genomes]
rs6455689	0.97[ASN][1000 genomes]
rs6455691	0.88[ASN][1000 genomes]
rs6455692	0.88[ASN][1000 genomes]
rs6455695	0.86[ASN][1000 genomes]
rs6455696	0.86[ASN][1000 genomes]
rs6902102	0.88[ASN][1000 genomes]
rs6903340	0.99[ASN][1000 genomes]
rs6905073	0.82[ASN][1000 genomes]
rs6905422	0.84[ASN][1000 genomes]
rs6906412	0.89[ASN][1000 genomes]
rs6906446	0.84[ASN][1000 genomes]
rs6910635	1.00[ASN][1000 genomes]
rs6913833	0.88[ASN][1000 genomes]
rs6919497	0.86[ASN][1000 genomes]
rs6921516	0.94[ASN][1000 genomes]
rs6923877	0.89[ASN][1000 genomes]
rs6923917	0.86[ASN][1000 genomes]
rs6926458	0.87[ASN][1000 genomes]
rs6926896	0.84[ASN][1000 genomes]
rs6927129	0.97[ASN][1000 genomes]
rs6929299	0.86[ASN][1000 genomes]
rs6930342	0.88[ASN][1000 genomes]
rs6932014	0.88[ASN][1000 genomes]
rs6933576	0.84[ASN][1000 genomes]
rs6937879	0.86[ASN][1000 genomes]
rs6939089	1.00[ASN][1000 genomes]
rs6940254	0.87[ASN][1000 genomes]
rs7450279	0.97[ASN][1000 genomes]
rs7450411	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7453899	0.97[ASN][1000 genomes]
rs7750229	0.88[ASN][1000 genomes]
rs7752408	0.88[ASN][1000 genomes]
rs7760585	0.83[ASN][1000 genomes]
rs7761377	0.84[ASN][1000 genomes]
rs7765781	0.97[ASN][1000 genomes]
rs7765803	0.97[ASN][1000 genomes]
rs7769720	0.86[ASN][1000 genomes]
rs7770685	0.82[ASN][1000 genomes]
rs7771129	0.88[ASN][1000 genomes]
rs7771801	0.97[ASN][1000 genomes]
rs7775704	1.00[ASN][1000 genomes]
rs9295130	0.83[ASN][1000 genomes]
rs9346820	0.87[ASN][1000 genomes]
rs9346821	0.86[ASN][1000 genomes]
rs9346824	1.00[ASN][1000 genomes]
rs9347414	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9347418	0.90[ASN][1000 genomes]
rs9355295	1.00[ASN][1000 genomes]
rs9355297	0.87[ASN][1000 genomes]
rs9355813	0.86[ASN][1000 genomes]
rs9355814	0.86[ASN][1000 genomes]
rs9355815	0.86[ASN][1000 genomes]
rs9364562	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9364564	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9365173	0.84[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9365174	0.87[ASN][1000 genomes]
rs9365176	0.95[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9365178	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9365179	0.88[ASN][1000 genomes]
rs9456551	0.97[ASN][1000 genomes]
rs9456552	0.88[ASN][1000 genomes]
rs9457943	0.87[ASN][1000 genomes]
rs9457946	0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:24 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2758089	chr6:160372244-161234665	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
2	esv2759484	chr6:160372244-161234665	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
3	esv35098	chr6:160422589-161070870	Strong transcription Weak transcription Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	esv2757197	chr6:160432331-161070870	Weak transcription Genic enhancers Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv818463	chr6:160435569-161025547	Weak transcription Enhancers Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
6	nsv1030171	chr6:160648469-161091864	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv886811	chr6:160700769-161070990	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
8	nsv886812	chr6:160706661-161024848	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
9	esv1801254	chr6:160932981-161079798	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
10	esv1846296	chr6:160932981-161079798	Bivalent Enhancer Active TSS Enhancers Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
11	nsv427770	chr6:160932981-161079798	Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
12	esv1793293	chr6:160937316-161079798	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Genic enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
13	esv1806032	chr6:160937316-161079798	Bivalent/Poised TSS Enhancers Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	esv1818315	chr6:160937316-161079798	Enhancers Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
15	esv1826647	chr6:160937316-161079798	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Weak transcription ZNF genes & repeats Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	esv1843091	chr6:160937316-161079798	Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
17	nsv428155	chr6:160937316-161079798	Active TSS Weak transcription Flanking Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Strong transcription Genic enhancers	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
18	nsv604997	chr6:160957114-161088918	Weak transcription Bivalent Enhancer Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv886814	chr6:160970963-161081331	Enhancers ZNF genes & repeats Weak transcription Strong transcription Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
20	nsv830852	chr6:160992558-161065940	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
21	esv3393116	chr6:160996387-160998935	Weak transcription Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
22	esv3381350	chr6:160996587-160998835	Strong transcription Weak transcription	Chromatin interactive region	n/a	inside rSNPs	diseases
23	nsv5567	chr6:160996906-161084659	Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
24	esv3372162	chr6:160997012-160998260	Weak transcription Strong transcription	n/a	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs3798221	OSTCL	cis	parietal	SCAN

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:160990600-161032600	Strong transcription	Liver	Liver
2	chr6:160997200-161001000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland

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