Variant report

Variant	rs7955308
Chromosome Location	chr12:40821176-40821177
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MUC19-1	chr12:40821176-40821298	NONHSAT027728

Extended variants
information (count: 94 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs1035812	0.83[JPT][hapmap]
rs1035813	0.84[JPT][hapmap]
rs10732751	0.84[JPT][hapmap]
rs10748040	0.84[JPT][hapmap]
rs10784518	0.83[JPT][hapmap]
rs10784528	0.89[JPT][hapmap]
rs10784536	0.84[JPT][hapmap]
rs10784587	0.95[ASN][1000 genomes]
rs11564230	0.84[JPT][hapmap];0.94[MEX][hapmap]
rs1365763	0.84[JPT][hapmap]
rs1365765	0.84[JPT][hapmap]
rs1365766	0.84[JPT][hapmap]
rs1427259	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1427261	0.86[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.96[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1427271	0.84[JPT][hapmap]
rs1427272	0.84[JPT][hapmap]
rs1427273	0.84[JPT][hapmap]
rs1549562	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1816207	1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs1822606	0.91[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1834745	0.94[ASN][1000 genomes]
rs1834746	0.86[ASN][1000 genomes]
rs2081702	0.94[ASN][1000 genomes]
rs2162472	0.84[JPT][hapmap]
rs2217148	0.95[ASN][1000 genomes]
rs2404836	0.84[JPT][hapmap]
rs3789330	0.83[JPT][hapmap]
rs3861083	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs3943893	0.84[JPT][hapmap]
rs4099579	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs4473003	0.86[TSI][hapmap]
rs4767971	0.89[JPT][hapmap]
rs4767972	0.82[JPT][hapmap]
rs4767974	1.00[CHB][hapmap];0.90[JPT][hapmap]
rs4767975	1.00[CHB][hapmap];0.90[CHD][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs4768232	0.84[JPT][hapmap]
rs4768234	0.84[JPT][hapmap]
rs4768235	0.84[JPT][hapmap]
rs4768250	0.95[ASN][1000 genomes]
rs6581723	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.94[MKK][hapmap];1.00[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7131694	0.89[JPT][hapmap]
rs7136122	0.93[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.96[MKK][hapmap];0.92[TSI][hapmap];1.00[YRI][hapmap];0.91[ASN][1000 genomes]
rs7137437	0.84[JPT][hapmap]
rs715402	0.88[JPT][hapmap]
rs7294952	0.84[JPT][hapmap]
rs7294958	0.84[JPT][hapmap]
rs7306545	0.84[JPT][hapmap]
rs7307310	0.89[JPT][hapmap];0.86[TSI][hapmap]
rs7308626	0.82[JPT][hapmap]
rs7311247	0.83[JPT][hapmap]
rs7313525	0.84[JPT][hapmap]
rs7313895	0.84[JPT][hapmap]
rs7314455	0.83[JPT][hapmap]
rs7314863	0.84[JPT][hapmap]
rs7954061	0.84[JPT][hapmap]
rs7956787	0.84[JPT][hapmap]
rs7956898	0.84[JPT][hapmap]
rs7957151	0.84[JPT][hapmap]
rs7959481	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7962116	0.84[JPT][hapmap]
rs7962370	0.86[TSI][hapmap]
rs7963086	0.89[JPT][hapmap]
rs7963987	0.84[JPT][hapmap]
rs7966143	0.89[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7971919	0.84[JPT][hapmap]
rs7976724	0.84[JPT][hapmap]
rs890575	0.84[JPT][hapmap]
rs919175	0.84[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:26 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832377	chr12:40704881-40855223	Weak transcription Enhancers ZNF genes & repeats Strong transcription Active TSS Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv899032	chr12:40735939-40827479	Weak transcription ZNF genes & repeats Strong transcription Enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
3	nsv558598	chr12:40742363-40828264	Strong transcription Weak transcription Enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
4	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
5	nsv558601	chr12:40802840-40824917	Weak transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
6	nsv558602	chr12:40802840-40825487	Enhancers Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	esv2755842	chr12:40803788-40821478	Enhancers ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
8	esv2755523	chr12:40804386-40821478	Weak transcription Enhancers ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
9	nsv558603	chr12:40809387-40825487	ZNF genes & repeats Weak transcription	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
10	nsv470287	chr12:40809387-40825845	Weak transcription ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv437744	chr12:40812764-40821176	ZNF genes & repeats Weak transcription	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases
12	nsv1050076	chr12:40813295-40831595	Enhancers ZNF genes & repeats	TF binding region lncRNA	3 gene(s)	inside rSNPs	diseases
13	nsv437745	chr12:40814452-40821176	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
14	nsv1047391	chr12:40817585-40831595	Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
15	nsv1039272	chr12:40817585-40841318	Enhancers	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
16	nsv442646	chr12:40817597-40821477	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
17	esv2421846	chr12:40817597-40821478	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
18	esv2762975	chr12:40817597-40821478	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
19	esv14426	chr12:40817762-40821672	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
20	esv2754795	chr12:40817807-40821478	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
21	nsv514670	chr12:40817925-40821453	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
22	esv34373	chr12:40817995-40821478	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
23	esv34482	chr12:40817995-40821478	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
24	nsv515583	chr12:40818260-40824917	Inactive region	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
25	nsv558604	chr12:40818260-40831569	Enhancers	TF binding region lncRNA	1 gene(s)	inside rSNPs	diseases
26	nsv522066	chr12:40820632-40830583	Enhancers	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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