Variant report

Variant	rs55638859
Chromosome Location	chr19:21146587-21146588
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 104 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:93)

rs_ID	r²[population]
rs1004397	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10405074	0.81[ASN][1000 genomes]
rs10405197	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10412338	0.81[ASN][1000 genomes]
rs10412523	0.81[ASN][1000 genomes]
rs10414014	0.81[ASN][1000 genomes]
rs10418943	0.81[ASN][1000 genomes]
rs10419167	0.81[ASN][1000 genomes]
rs10420060	0.81[ASN][1000 genomes]
rs10422272	0.81[ASN][1000 genomes]
rs10854041	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11085417	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11085418	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11672995	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11879744	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11879840	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11880895	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11881660	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11881840	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11882347	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12232869	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1465427	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1465428	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1465430	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16997414	0.81[ASN][1000 genomes]
rs16997443	0.81[ASN][1000 genomes]
rs17618044	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17618068	0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs17618080	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17679966	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1985020	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1985456	0.81[ASN][1000 genomes]
rs2042265	0.81[ASN][1000 genomes]
rs2042266	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2042267	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2042268	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2042270	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2161464	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2545228	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs28699298	0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28720017	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3885757	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55672800	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55965424	0.81[ASN][1000 genomes]
rs55966407	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56033918	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56089621	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56099007	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56103246	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56119047	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56205787	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56268613	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56360533	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56367621	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56411557	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs56892523	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs58752759	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59677924	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59710256	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs59841381	0.81[ASN][1000 genomes]
rs59954926	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs59964227	0.82[ASN][1000 genomes]
rs60156891	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61002752	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61385453	0.81[ASN][1000 genomes]
rs62123192	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123194	0.86[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs62123195	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123196	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123197	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123198	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123199	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123200	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123202	0.86[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs62123207	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123208	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123209	0.84[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123210	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62123216	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123217	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123218	0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62123219	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62123226	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs62123228	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62123231	0.87[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62124028	0.81[ASN][1000 genomes]
rs62124029	0.81[ASN][1000 genomes]
rs62124032	0.81[ASN][1000 genomes]
rs62125464	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67268757	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73007009	0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs73535110	0.86[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs8182471	0.87[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2752729	chr19:20818886-21169554	ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv1062776	chr19:20818886-21273361	Weak transcription Active TSS Enhancers ZNF genes & repeats Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
3	nsv932110	chr19:20818886-21278952	Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
4	esv2763043	chr19:20818886-21290543	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
5	nsv1063954	chr19:21000562-21177577	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
6	nsv578946	chr19:21014403-21151796	ZNF genes & repeats Flanking Active TSS Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
7	esv3385528	chr19:21030777-21495566	Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
8	nsv817536	chr19:21041855-21348237	Strong transcription Enhancers Genic enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
9	esv1850387	chr19:21109758-21294264	Active TSS ZNF genes & repeats Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' Flanking Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
10	nsv960810	chr19:21138740-21148557	Enhancers ZNF genes & repeats Weak transcription	TF binding region	2 gene(s)	inside rSNPs	diseases
11	nsv1055484	chr19:21141787-21158134	Weak transcription ZNF genes & repeats Enhancers	TF binding region lncRNA	5 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs55638859	ZNF85	Cis_1M	lymphoblastoid	RTeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:21144200-21147600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell

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