Variant report

Variant	rs28740899
Chromosome Location	chr4:119115649-119115650
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10002349	1.00[AMR][1000 genomes]
rs10003652	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10005659	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10007553	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10018706	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10024548	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10025029	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10025515	1.00[AMR][1000 genomes]
rs10028823	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10030057	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10031402	1.00[AMR][1000 genomes]
rs11931409	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11946772	0.96[AFR][1000 genomes]
rs13434557	1.00[AMR][1000 genomes]
rs28421577	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28451256	1.00[AMR][1000 genomes]
rs28484271	1.00[AMR][1000 genomes]
rs28558085	1.00[AMR][1000 genomes]
rs28567841	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28576396	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28582030	1.00[AMR][1000 genomes]
rs28585079	1.00[AMR][1000 genomes]
rs28610040	1.00[AMR][1000 genomes]
rs28619162	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28634343	1.00[AMR][1000 genomes]
rs28665169	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28667620	1.00[AMR][1000 genomes]
rs28669076	1.00[AMR][1000 genomes]
rs28682376	1.00[AMR][1000 genomes]
rs28706008	1.00[AMR][1000 genomes]
rs28715892	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28735538	1.00[AMR][1000 genomes]
rs28771156	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28776305	1.00[AMR][1000 genomes]
rs28823876	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28847597	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28886020	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57461354	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs9307456	1.00[AMR][1000 genomes]
rs9994181	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv519017	chr4:118828807-119771481	Strong transcription Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats 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	39 gene(s)	inside rSNPs	diseases
2	nsv1009076	chr4:118949490-119269424	Enhancers Weak transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Flanking Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	nsv1001236	chr4:118949490-119271243	Weak transcription Active TSS Enhancers Genic enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv1008236	chr4:118989467-119154024	ZNF genes & repeats Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
5	nsv999152	chr4:119001143-119138322	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	esv34038	chr4:119035124-119455391	Enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
7	nsv1001138	chr4:119095147-119461837	Active TSS Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
8	nsv537230	chr4:119095147-119461837	Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
9	nsv4485	chr4:119103349-119144334	Flanking Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	n/a
10	esv3524414	chr4:119106398-119131703	Enhancers Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region	1 gene(s)	inside rSNPs	n/a
11	esv3524415	chr4:119106398-119131703	Enhancers ZNF genes & repeats Strong transcription Weak transcription Flanking Active TSS Active TSS	TF binding region	1 gene(s)	inside rSNPs	n/a
12	nsv980250	chr4:119114295-119115982	ZNF genes & repeats Weak transcription	TF binding region	1 gene(s)	inside rSNPs	n/a
13	nsv595283	chr4:119114424-119130109	Weak transcription Enhancers ZNF genes & repeats Strong transcription	TF binding region	1 gene(s)	inside rSNPs	n/a
14	nsv511250	chr4:119115366-119134308	Enhancers ZNF genes & repeats Weak transcription Strong transcription	TF binding region	1 gene(s)	inside rSNPs	n/a
15	nsv966561	chr4:119115482-119130733	Enhancers ZNF genes & repeats Weak transcription Strong transcription	TF binding region	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:119105200-119117000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr4:119112000-119125200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
3	chr4:119114000-119116400	ZNF genes & repeats	Dnd41	blood
4	chr4:119115200-119116000	ZNF genes & repeats	iPS DF 19.11 Cell Line	embryonic stem cell

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