Variant report

Variant	rs10877305
Chromosome Location	chr12:40064204-40064205
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs10047563	0.89[AFR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10747853	0.91[ASN][1000 genomes]
rs10783993	0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10783994	0.95[ASN][1000 genomes]
rs10783998	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10784001	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10784016	0.83[AFR][1000 genomes];0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10877335	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10877337	0.81[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10877369	0.81[AFR][1000 genomes];0.87[ASN][1000 genomes]
rs10877410	0.80[ASN][1000 genomes]
rs11173257	0.85[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs11173260	0.81[AFR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11173262	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12823801	0.82[ASN][1000 genomes]
rs12825223	0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4411336	0.95[ASN][1000 genomes]
rs4417381	0.95[ASN][1000 genomes]
rs4417382	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4594067	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4767949	0.95[ASN][1000 genomes]
rs4768168	0.96[ASN][1000 genomes]
rs4768169	0.89[AFR][1000 genomes];0.96[ASN][1000 genomes]
rs4768170	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs57244766	0.80[ASN][1000 genomes]
rs58418587	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs58755301	0.81[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs61933102	0.90[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61933154	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs6421195	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6421196	0.84[AFR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6421197	0.85[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6421198	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581263	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581265	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581266	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581270	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581271	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581272	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6581294	0.81[AFR][1000 genomes];0.80[ASN][1000 genomes]
rs7136929	0.90[AFR][1000 genomes];0.80[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7296585	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7485345	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7486196	0.96[ASN][1000 genomes]
rs7486621	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7487999	0.96[AFR][1000 genomes];0.91[AMR][1000 genomes];0.82[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7952735	0.95[ASN][1000 genomes]
rs7956577	0.91[AFR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7959285	0.85[AMR][1000 genomes];0.83[ASN][1000 genomes]
rs7959905	0.88[AFR][1000 genomes];0.82[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7961070	0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531527	chr12:39680812-40182822	Enhancers Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv1037457	chr12:39898349-40245401	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv541480	chr12:39898349-40245401	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv899014	chr12:39946354-40068896	Enhancers Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv899015	chr12:39946354-40118249	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
6	nsv899017	chr12:39949147-40081619	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
7	nsv899018	chr12:39949147-40111761	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
8	nsv899022	chr12:40014427-40111761	Active TSS Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
9	nsv899023	chr12:40046408-40111761	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats	Chromatin interactive region miRNA target site	n/a	inside rSNPs	diseases
10	nsv899024	chr12:40046408-40188870	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Active TSS Strong transcription	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:40062600-40064400	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
2	chr12:40062800-40064400	Enhancers	Primary T cells fromperipheralblood	blood
3	chr12:40063000-40064400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
4	chr12:40063000-40064400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
5	chr12:40063000-40064600	Enhancers	Primary T killer memory cells from peripheral blood	blood
6	chr12:40063200-40064400	Enhancers	Primary T helper cells fromperipheralblood	blood
7	chr12:40063600-40064400	Enhancers	Primary T helper naive cells from peripheral blood	blood
8	chr12:40063800-40065600	ZNF genes & repeats	Primary T regulatory cells fromperipheralblood	blood
9	chr12:40064200-40064400	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr12:40064200-40065400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
11	chr12:40064200-40065800	ZNF genes & repeats	Primary T helper memory cells from peripheral blood 1	blood

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