Variant report

Variant	rs4717163
Chromosome Location	chr7:63488901-63488902
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ZNF680-3	chr7:63488894-63489152	XLOC_006468

Extended variants
information (count: 82 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs10238001	0.92[ASN][1000 genomes]
rs10238781	0.90[ASN][1000 genomes]
rs10250989	0.92[ASN][1000 genomes]
rs10257979	0.93[ASN][1000 genomes]
rs10282465	0.93[ASN][1000 genomes]
rs1036611	0.91[ASN][1000 genomes]
rs10807673	0.93[ASN][1000 genomes]
rs10807674	0.93[ASN][1000 genomes]
rs10949858	0.95[EUR][1000 genomes]
rs10949863	0.83[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs10949865	0.93[ASN][1000 genomes]
rs10949866	0.93[ASN][1000 genomes]
rs11520659	0.96[EUR][1000 genomes]
rs11979814	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs12668280	0.92[ASN][1000 genomes]
rs13227194	0.86[ASN][1000 genomes]
rs1347879	0.93[ASN][1000 genomes]
rs1439144	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1439145	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1439147	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1583720	0.88[EUR][1000 genomes]
rs1595623	0.95[EUR][1000 genomes]
rs1807031	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1814044	0.90[ASN][1000 genomes]
rs1837332	0.93[EUR][1000 genomes]
rs1837333	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1837334	0.86[AFR][1000 genomes];0.98[EUR][1000 genomes]
rs1837345	0.95[EUR][1000 genomes]
rs1898827	0.92[ASN][1000 genomes]
rs1946854	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2011824	0.93[ASN][1000 genomes]
rs2017683	0.93[EUR][1000 genomes]
rs2018295	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2018367	0.86[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs2278571	0.93[EUR][1000 genomes]
rs2278573	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2278574	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2861498	0.87[EUR][1000 genomes]
rs2861499	0.83[EUR][1000 genomes]
rs2861504	0.89[ASN][1000 genomes]
rs3857669	0.94[EUR][1000 genomes]
rs4467830	0.84[ASN][1000 genomes]
rs4717966	0.92[ASN][1000 genomes]
rs4717967	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs4717969	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs56303175	0.90[EUR][1000 genomes]
rs6460105	0.96[ASN][1000 genomes]
rs6460106	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6460107	0.93[ASN][1000 genomes]
rs6460109	0.94[EUR][1000 genomes]
rs6949981	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6959038	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6959359	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6960046	0.96[EUR][1000 genomes]
rs6973547	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6973557	0.82[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs6973779	0.82[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs6979758	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7779829	0.82[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs7783518	0.93[ASN][1000 genomes]
rs7793587	0.93[ASN][1000 genomes]
rs7810753	0.93[ASN][1000 genomes]
rs970354	0.95[EUR][1000 genomes]
rs981084	0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:18 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv888255	chr7:63175168-63990100	Active TSS ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	57 gene(s)	inside rSNPs	diseases
2	nsv888258	chr7:63294907-63537173	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	22 gene(s)	inside rSNPs	diseases
3	nsv534361	chr7:63328472-63955286	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	53 gene(s)	inside rSNPs	diseases
4	nsv888259	chr7:63363001-64009193	ZNF genes & repeats Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
5	esv3365963	chr7:63367092-63587809	Active TSS ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
6	esv3496812	chr7:63367459-63649196	Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
7	esv3496813	chr7:63367459-63649196	Weak transcription ZNF genes & repeats Active TSS Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
8	esv3336155	chr7:63368772-63650552	Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
9	nsv464514	chr7:63383123-63847894	Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Weak transcription Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
10	nsv607304	chr7:63383123-63847894	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
11	nsv888260	chr7:63389550-63565953	ZNF genes & repeats Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
12	nsv1016151	chr7:63420068-63704289	Strong transcription ZNF genes & repeats Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	28 gene(s)	inside rSNPs	diseases
13	nsv1019447	chr7:63420068-63766444	Active TSS ZNF genes & repeats Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	29 gene(s)	inside rSNPs	diseases
14	nsv888262	chr7:63421577-63495571	ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
15	nsv1016466	chr7:63438466-63969492	ZNF genes & repeats Active TSS Flanking Active TSS Weak transcription Enhancers Strong transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	41 gene(s)	inside rSNPs	diseases
16	nsv966817	chr7:63449908-63505755	Flanking Active TSS Active TSS ZNF genes & repeats Enhancers Weak transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
17	nsv888263	chr7:63464342-63565953	ZNF genes & repeats Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
18	esv3378509	chr7:63482728-63739475	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:63486200-63489000	ZNF genes & repeats	HUES48 Cell Line	embryonic stem cell

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