Variant report

Variant	rs2588417
Chromosome Location	chr12:40881509-40881510
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MUC19-1	chr12:40879237-40885130	NONHSAT027728

Extended variants
information (count: 68 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10878602	0.90[ASN][1000 genomes]
rs10878603	0.90[ASN][1000 genomes]
rs11176655	0.86[ASN][1000 genomes]
rs11564230	0.86[ASN][1000 genomes]
rs12581232	0.89[ASN][1000 genomes]
rs1388782	0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1388784	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1444215	0.92[ASN][1000 genomes]
rs1492320	0.85[AFR][1000 genomes]
rs2251431	0.84[AFR][1000 genomes]
rs2588395	0.93[ASN][1000 genomes]
rs2588414	1.00[AFR][1000 genomes];0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2638866	0.93[ASN][1000 genomes]
rs2638868	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2638876	0.87[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs2638877	0.87[AFR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2638881	0.93[ASN][1000 genomes]
rs2920813	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2920832	0.96[AFR][1000 genomes];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2933346	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2933353	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2933354	0.97[AFR][1000 genomes];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2933364	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2933379	0.93[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2933380	0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:43 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv899033	chr12:40758652-41122288	Bivalent/Poised TSS Enhancers Strong transcription Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
2	esv1848303	chr12:40867011-40887238	Enhancers Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	esv1850439	chr12:40867211-40887867	Enhancers ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	esv20428	chr12:40867874-40884927	Weak transcription Enhancers ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
5	esv1827225	chr12:40873026-40894172	Weak transcription ZNF genes & repeats Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	esv1833623	chr12:40873026-40894172	ZNF genes & repeats Weak transcription Strong transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv821471	chr12:40873057-40885132	ZNF genes & repeats Strong transcription Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	esv16680	chr12:40873057-40885157	ZNF genes & repeats Strong transcription Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
9	nsv558610	chr12:40874088-40882121	Weak transcription ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
10	esv1809170	chr12:40874860-40882121	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
11	esv1826427	chr12:40874860-40882121	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
12	nsv558627	chr12:40874860-40882121	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
13	esv1820410	chr12:40874860-40883745	Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
14	nsv558628	chr12:40874860-40883745	ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
15	esv1834493	chr12:40874860-40884744	ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
16	esv1807063	chr12:40874912-40883745	Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
17	nsv558635	chr12:40874912-40884881	ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
18	nsv558645	chr12:40875014-40884744	ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
19	nsv558658	chr12:40875252-40882121	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
20	nsv558661	chr12:40875303-40882121	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
21	nsv558662	chr12:40875303-40883745	ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
22	nsv558663	chr12:40875303-40884881	ZNF genes & repeats Weak transcription	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
23	nsv558668	chr12:40875351-40882121	ZNF genes & repeats Weak transcription	lncRNA	n/a	inside rSNPs	diseases
24	nsv558669	chr12:40875351-40884744	Weak transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
25	nsv558688	chr12:40876644-40881673	ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
26	nsv558689	chr12:40876644-40882121	ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
27	nsv558690	chr12:40876644-40883745	ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
28	nsv558691	chr12:40876644-40884403	ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
29	nsv558692	chr12:40877007-40882121	ZNF genes & repeats	lncRNA	n/a	inside rSNPs	diseases
30	nsv558693	chr12:40877007-40884403	ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
31	nsv8969	chr12:40877065-40884382	ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
32	esv2427709	chr12:40877987-40884242	ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
33	esv3366195	chr12:40878095-40883943	ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
34	nsv558694	chr12:40878452-40883745	ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
35	nsv558695	chr12:40879177-40884403	Inactive region	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
36	esv3417084	chr12:40880040-40881721	Inactive region	lncRNA	n/a	inside rSNPs	diseases
37	esv1828850	chr12:40880060-40882490	Inactive region	lncRNA	n/a	inside rSNPs	diseases
38	nsv437747	chr12:40880060-40884666	Inactive region	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
39	nsv437748	chr12:40880060-40884666	Inactive region	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
40	nsv437749	chr12:40880060-40884666	Inactive region	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
41	nsv437750	chr12:40880060-40884666	Inactive region	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
42	esv3372529	chr12:40880885-40885083	Inactive region	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
43	esv1007128	chr12:40881453-40881512	Inactive region	lncRNA	n/a	inside rSNPs	diseases

No data

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

No data

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

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