Variant report

Variant	rs1408130
Chromosome Location	chr9:9808250-9808251
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 107 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs1323790	0.85[CEU][hapmap];0.85[EUR][1000 genomes]
rs1323793	0.81[JPT][hapmap]
rs1408126	1.00[CHB][hapmap];0.95[CHD][hapmap]
rs1408127	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1408128	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1408129	1.00[CHB][hapmap];0.91[YRI][hapmap]
rs1408132	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1408133	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1570590	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs1613507	1.00[CHB][hapmap];0.95[CHD][hapmap]
rs1746799	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[ASN][1000 genomes]
rs1746805	0.85[TSI][hapmap]
rs1746807	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1768867	0.89[CEU][hapmap];0.86[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.84[MKK][hapmap];1.00[TSI][hapmap]
rs1768871	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1768872	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1768873	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1768875	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1768881	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[ASN][1000 genomes]
rs1830775	1.00[CHB][hapmap];0.95[CHD][hapmap]
rs1934270	1.00[CHB][hapmap];0.92[ASN][1000 genomes]
rs2251180	1.00[CHB][hapmap]
rs2476591	0.85[TSI][hapmap]
rs2761739	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2761748	0.96[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];0.98[TSI][hapmap]
rs2761749	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2761750	0.88[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2761752	1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.82[MKK][hapmap];1.00[TSI][hapmap]
rs2761758	0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2761759	0.85[CEU][hapmap];1.00[CHB][hapmap];0.91[CHD][hapmap];0.93[GIH][hapmap];0.90[JPT][hapmap];0.83[MEX][hapmap];0.95[TSI][hapmap]
rs2821460	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs2821480	1.00[CHB][hapmap];0.88[JPT][hapmap]
rs2821483	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2821488	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2821490	1.00[CHB][hapmap];0.95[CHD][hapmap]
rs2821510	0.85[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs66506857	0.86[EUR][1000 genomes]
rs912356	0.89[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs912359	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9299098	0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs9407448	0.82[CHD][hapmap];0.87[GIH][hapmap];0.95[MEX][hapmap]
rs9407450	0.82[GIH][hapmap]
rs9408792	0.92[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap]
rs9408795	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:63 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892270	chr9:9591059-9860735	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	esv2422381	chr9:9647540-9887820	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv526471	chr9:9718066-9832245	Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	esv2829906	chr9:9737201-9897866	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv1034731	chr9:9776126-10481262	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
6	nsv892276	chr9:9778653-9851382	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
7	esv2753179	chr9:9778653-9861006	Enhancers Bivalent Enhancer Active TSS Flanking Active TSS Bivalent/Poised TSS Weak transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
8	nsv1019399	chr9:9780915-9942126	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
9	nsv471276	chr9:9785685-9863227	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
10	nsv892277	chr9:9785685-9882950	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
11	nsv892278	chr9:9787587-9851382	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
12	nsv892281	chr9:9790222-9851382	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
13	nsv892283	chr9:9792811-9851382	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv466137	chr9:9793285-9831142	Active TSS Enhancers Weak transcription Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv613325	chr9:9793285-9831142	Enhancers Weak transcription Active TSS Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
16	nsv1018814	chr9:9793285-9957301	Active TSS Enhancers Flanking Active TSS Weak transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
17	nsv892284	chr9:9793342-9816063	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
18	nsv466139	chr9:9793342-9858060	Active TSS Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
19	nsv613326	chr9:9793342-9858060	Bivalent/Poised TSS Enhancers Weak transcription Flanking Active TSS Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
20	nsv892285	chr9:9794545-9809590	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv466140	chr9:9794545-9851382	Enhancers Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
22	nsv613327	chr9:9794545-9851382	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
23	nsv892286	chr9:9794545-9851382	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
24	nsv892287	chr9:9794545-9869714	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
25	nsv892288	chr9:9794545-9882950	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
26	nsv613330	chr9:9796577-9819028	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
27	nsv1022667	chr9:9796577-9821895	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
28	esv2757311	chr9:9796608-9814116	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
29	esv2759664	chr9:9796608-9814116	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
30	nsv613331	chr9:9798092-9819028	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
31	nsv613332	chr9:9798092-9869714	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
32	nsv1018188	chr9:9798243-9821783	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
33	nsv1034821	chr9:9798243-9822041	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
34	esv2764154	chr9:9798243-9822053	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
35	nsv437081	chr9:9798410-9824156	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
36	nsv892289	chr9:9798666-9809590	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
37	nsv518851	chr9:9798666-9819028	Weak transcription Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
38	nsv613333	chr9:9798666-9819028	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
39	nsv1025772	chr9:9799050-9822041	Enhancers Weak transcription	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
40	nsv613334	chr9:9800546-9819028	Enhancers Weak transcription	lncRNA	n/a	inside rSNPs	diseases
41	nsv892290	chr9:9800624-9816063	Enhancers Weak transcription	lncRNA	n/a	inside rSNPs	diseases
42	nsv613335	chr9:9800624-9855408	Enhancers Bivalent/Poised TSS Flanking Active TSS Weak transcription Active TSS	lncRNA	n/a	inside rSNPs	diseases
43	nsv1018895	chr9:9801869-9822041	Enhancers	lncRNA	n/a	inside rSNPs	diseases
44	nsv466141	chr9:9801907-9816955	Enhancers	lncRNA	n/a	inside rSNPs	diseases
45	nsv613336	chr9:9801907-9816955	Enhancers	lncRNA	n/a	inside rSNPs	diseases
46	nsv466142	chr9:9801907-9858060	Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS	lncRNA	n/a	inside rSNPs	diseases
47	nsv613337	chr9:9801907-9858060	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription	lncRNA	n/a	inside rSNPs	diseases
48	nsv613338	chr9:9801907-9859571	Enhancers Flanking Active TSS Active TSS Weak transcription Bivalent/Poised TSS	lncRNA	n/a	inside rSNPs	diseases
49	nsv613339	chr9:9802058-9816063	Enhancers	lncRNA	n/a	inside rSNPs	diseases
50	nsv892291	chr9:9802458-9851382	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription	lncRNA	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1408130	RANBP6	cis	parietal	SCAN

Chromatin state (count:0 , 50 per page) page:

No data

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links