Variant report

Variant	rs10858411
Chromosome Location	chr12:86697440-86697441
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 146 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:99)

rs_ID	r²[population]
rs10745415	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs10776954	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10776958	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs10776960	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10776967	0.98[EUR][1000 genomes]
rs10776975	0.89[CEU][hapmap]
rs10858409	0.88[EUR][1000 genomes]
rs10858412	0.89[CEU][hapmap]
rs10858417	0.97[EUR][1000 genomes]
rs10858420	0.94[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10858424	1.00[CHB][hapmap]
rs10858429	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs1097997	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs11103946	0.96[EUR][1000 genomes]
rs12372566	1.00[CHB][hapmap]
rs1389292	0.94[CEU][hapmap];1.00[CHB][hapmap];0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1389294	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1389295	0.84[CEU][hapmap];0.91[EUR][1000 genomes]
rs1463750	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs1493413	0.93[EUR][1000 genomes]
rs1493414	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1493417	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs1493418	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1493419	0.84[CEU][hapmap]
rs1532263	0.94[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs1628799	0.94[CEU][hapmap]
rs1689364	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs1698757	1.00[CHB][hapmap]
rs1922745	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs1994863	0.87[EUR][1000 genomes]
rs2178748	0.87[CEU][hapmap];1.00[CHB][hapmap]
rs2405932	0.83[CEU][hapmap]
rs2405934	0.89[CEU][hapmap]
rs2406120	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs2406121	0.93[EUR][1000 genomes]
rs2406128	0.89[CEU][hapmap]
rs2406142	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs2406156	1.00[CHB][hapmap]
rs2406159	1.00[CHB][hapmap]
rs2452803	0.89[CEU][hapmap];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2452805	0.88[CEU][hapmap];0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2452808	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2465142	0.91[EUR][1000 genomes]
rs2465145	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2465148	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2471562	0.80[CEU][hapmap]
rs2471565	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs2471567	0.84[CEU][hapmap];0.91[EUR][1000 genomes]
rs2897269	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs2897273	0.82[CEU][hapmap];1.00[CHB][hapmap]
rs4300451	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs4329741	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4444151	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs6538021	0.84[CEU][hapmap]
rs6538023	0.94[CEU][hapmap];0.82[EUR][1000 genomes]
rs6538027	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs6538040	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs6538044	0.81[EUR][1000 genomes]
rs7134045	0.82[CEU][hapmap]
rs7134944	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs7303642	0.93[EUR][1000 genomes]
rs7309839	0.89[CEU][hapmap];1.00[CHB][hapmap]
rs7312245	1.00[CEU][hapmap];1.00[CHB][hapmap]
rs7953494	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7954833	0.94[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7954883	1.00[CHB][hapmap];0.81[EUR][1000 genomes]
rs7963957	0.88[EUR][1000 genomes]
rs7966656	0.86[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs7972185	0.94[CEU][hapmap]
rs7975314	0.88[CEU][hapmap];1.00[CHB][hapmap]
rs839099	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839100	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs839106	1.00[CHB][hapmap]
rs839107	0.94[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs839109	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839112	0.84[CEU][hapmap]
rs839113	1.00[CHB][hapmap]
rs839114	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839115	1.00[CHB][hapmap]
rs839116	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839117	0.84[CEU][hapmap]
rs839119	1.00[CHB][hapmap]
rs839120	1.00[CHB][hapmap]
rs839124	1.00[CHB][hapmap]
rs839128	1.00[CHB][hapmap]
rs839134	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839138	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839139	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839147	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839162	0.89[CEU][hapmap]
rs839166	0.80[CEU][hapmap]
rs839183	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs839189	1.00[CHB][hapmap]
rs839191	1.00[CHB][hapmap]
rs844433	0.94[CEU][hapmap]
rs844434	0.80[CEU][hapmap]
rs844437	0.84[CEU][hapmap];1.00[CHB][hapmap]
rs858213	0.94[CEU][hapmap];1.00[CHB][hapmap]
rs866893	1.00[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:47 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1049179	chr12:86056376-86799188	Weak transcription Enhancers Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	esv2761759	chr12:86415936-86747726	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
3	nsv518059	chr12:86416212-86747726	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv1041397	chr12:86438607-86737558	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1053087	chr12:86569126-86733418	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv541564	chr12:86569126-86733418	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	nsv1037003	chr12:86610040-86798121	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
8	nsv1045386	chr12:86616015-86733418	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv541565	chr12:86616015-86733418	Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	esv1843214	chr12:86673989-86703959	Weak transcription Enhancers ZNF genes & repeats Active TSS	n/a	n/a	inside rSNPs	diseases
11	esv1850061	chr12:86673989-86703959	ZNF genes & repeats Enhancers Weak transcription Active TSS	n/a	n/a	inside rSNPs	diseases
12	nsv802	chr12:86683758-86723684	Enhancers Weak transcription ZNF genes & repeats Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
13	nsv983491	chr12:86694812-86703018	Weak transcription Enhancers	n/a	n/a	inside rSNPs	diseases
14	esv2529439	chr12:86695010-86703868	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
15	esv2471686	chr12:86695246-86703977	Enhancers Weak transcription	n/a	n/a	inside rSNPs	diseases
16	nsv819565	chr12:86695439-86703271	Weak transcription	n/a	n/a	inside rSNPs	diseases
17	esv2131445	chr12:86695532-86703230	Weak transcription	n/a	n/a	inside rSNPs	diseases
18	esv3490474	chr12:86695557-86703172	Weak transcription	n/a	n/a	inside rSNPs	diseases
19	esv3490452	chr12:86695594-86703143	Weak transcription	n/a	n/a	inside rSNPs	diseases
20	esv3490463	chr12:86695609-86703142	Weak transcription	n/a	n/a	inside rSNPs	diseases
21	esv3490496	chr12:86695621-86703419	Weak transcription	n/a	n/a	inside rSNPs	diseases
22	esv3490485	chr12:86695628-86703098	Weak transcription	n/a	n/a	inside rSNPs	diseases
23	nsv826467	chr12:86695659-86703171	Weak transcription	n/a	n/a	inside rSNPs	diseases
24	nsv514678	chr12:86695677-86703029	Weak transcription	n/a	n/a	inside rSNPs	diseases
25	nsv498801	chr12:86695694-86703067	Weak transcription	n/a	n/a	inside rSNPs	diseases
26	esv3490508	chr12:86695695-86703067	Weak transcription	n/a	n/a	inside rSNPs	diseases
27	esv10267	chr12:86695700-86703035	Weak transcription	n/a	n/a	inside rSNPs	diseases
28	esv2421908	chr12:86695712-86701257	Weak transcription	n/a	n/a	inside rSNPs	diseases
29	nsv559684	chr12:86695712-86702395	Weak transcription	n/a	n/a	inside rSNPs	diseases
30	esv1843781	chr12:86695712-86702906	Weak transcription	n/a	n/a	inside rSNPs	diseases
31	esv1851865	chr12:86695712-86702906	Weak transcription	n/a	n/a	inside rSNPs	diseases
32	nsv559685	chr12:86695712-86702906	Weak transcription	n/a	n/a	inside rSNPs	diseases
33	esv1845118	chr12:86695712-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
34	esv1845447	chr12:86695712-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
35	esv1847280	chr12:86695712-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
36	esv1850693	chr12:86695712-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
37	nsv826468	chr12:86695754-86703171	Weak transcription	n/a	n/a	inside rSNPs	diseases
38	esv1847809	chr12:86696771-86702906	Weak transcription	n/a	n/a	inside rSNPs	diseases
39	esv1849878	chr12:86696771-86702906	Weak transcription	n/a	n/a	inside rSNPs	diseases
40	esv1850450	chr12:86696771-86702906	Weak transcription	n/a	n/a	inside rSNPs	diseases
41	esv1851205	chr12:86696771-86702906	Weak transcription	n/a	n/a	inside rSNPs	diseases
42	esv1844169	chr12:86696771-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
43	esv1846755	chr12:86696771-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
44	esv1846981	chr12:86696771-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
45	esv1849750	chr12:86696771-86703959	Weak transcription	n/a	n/a	inside rSNPs	diseases
46	esv1845250	chr12:86696771-86730126	Active TSS Enhancers Weak transcription Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
47	nsv559686	chr12:86697440-86700407	Weak transcription	n/a	n/a	inside rSNPs	n/a

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:86690600-86698200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links