Variant report

Variant	rs28735068
Chromosome Location	chr9:15527605-15527606
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	EGR1	chr9:15527543-15527739	GM12878	blood:	n/a	n/a
2	POLR2A	chr9:15527474-15527710	H1-hESC	embryonic stem cell:	n/a	n/a
3	POLR2A	chr9:15527576-15527683	K562	blood:	n/a	n/a
4	POU2F2	chr9:15527376-15527803	GM12878	blood:	n/a	chr9:15527731-15527743 chr9:15527728-15527740
5	POLR2A	chr9:15527211-15527975	H1-hESC	embryonic stem cell:	n/a	n/a
6	POLR2A	chr9:15527439-15527827	A549	lung:	n/a	n/a
7	POLR2A	chr9:15527550-15527691	GM12878	blood:	n/a	n/a
8	POLR2A	chr9:15527384-15527896	Hela-S3	cervix:	n/a	n/a
9	SIN3AK20	chr9:15527537-15527678	HepG2	liver:	n/a	n/a
10	POLR2A	chr9:15527405-15527790	GM12878	blood:	n/a	n/a
11	HEY1	chr9:15527512-15527915	HepG2	liver:	n/a	chr9:15527720-15527735 chr9:15527709-15527724 chr9:15527697-15527712
12	POLR2A	chr9:15527330-15528041	GM12892	blood:	n/a	n/a
13	POLR2A	chr9:15527326-15528011	GM12878	blood:	n/a	n/a
14	PAX5	chr9:15527309-15527754	GM12878	blood:	n/a	n/a
15	POLR2A	chr9:15527537-15527683	HepG2	liver:	n/a	n/a
16	HEY1	chr9:15527474-15527897	K562	blood:	n/a	chr9:15527720-15527735 chr9:15527709-15527724 chr9:15527697-15527712
17	POLR2A	chr9:15527557-15527713	A549	lung:	n/a	n/a
18	POLR2A	chr9:15527485-15527865	GM12878	blood:	n/a	n/a
19	HEY1	chr9:15527439-15527765	K562	blood:	n/a	chr9:15527720-15527735 chr9:15527709-15527724 chr9:15527697-15527712
20	POLR2A	chr9:15527519-15527715	A549	lung:	n/a	n/a
21	POLR2A	chr9:15527396-15527757	H1-hESC	embryonic stem cell:	n/a	n/a
22	POLR2A	chr9:15527539-15527763	H1-hESC	embryonic stem cell:	n/a	n/a
23	POLR2A	chr9:15527545-15527675	A549	lung:	n/a	n/a
24	ZBTB33	chr9:15527306-15527859	K562	blood:	n/a	n/a
25	POLR2A	chr9:15527360-15527919	Hela-S3	cervix:	n/a	n/a

Variant related genes	Relation type
RN7SL98P	TF binding region

Extended variants
information (count: 86 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:79)

rs_ID	r²[population]
rs10116904	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10117524	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10118595	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10118675	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10118719	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10119257	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10120171	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10121012	0.91[EUR][1000 genomes]
rs10121911	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10121971	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10123084	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10124655	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10124718	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs10124746	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10125713	0.88[EUR][1000 genomes]
rs1041529	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs10962061	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12344963	0.88[EUR][1000 genomes]
rs12348561	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12348564	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12348780	1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12350062	0.82[EUR][1000 genomes]
rs12350903	0.91[EUR][1000 genomes]
rs12352398	0.91[EUR][1000 genomes]
rs12353048	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs175762	0.85[EUR][1000 genomes]
rs1882939	0.88[AMR][1000 genomes]
rs2202865	0.82[EUR][1000 genomes]
rs2665503	0.88[EUR][1000 genomes]
rs2665510	0.88[AMR][1000 genomes]
rs2665511	0.88[AMR][1000 genomes]
rs2665512	0.88[AMR][1000 genomes]
rs2737836	0.88[AMR][1000 genomes]
rs276437	0.88[EUR][1000 genomes]
rs276438	0.85[EUR][1000 genomes]
rs276439	0.85[EUR][1000 genomes]
rs276445	0.85[EUR][1000 genomes]
rs276446	0.85[EUR][1000 genomes]
rs276450	0.91[EUR][1000 genomes]
rs276451	0.91[EUR][1000 genomes]
rs276452	0.85[EUR][1000 genomes]
rs2795123	0.88[AMR][1000 genomes]
rs2795124	0.88[AMR][1000 genomes]
rs2795128	0.91[EUR][1000 genomes]
rs2821525	0.88[EUR][1000 genomes]
rs2821533	0.88[AMR][1000 genomes]
rs2821542	0.91[EUR][1000 genomes]
rs2821543	0.88[EUR][1000 genomes]
rs2821544	0.94[EUR][1000 genomes]
rs28449490	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28610358	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs28659858	1.00[ASN][1000 genomes]
rs28796681	0.94[EUR][1000 genomes]
rs28800775	0.91[EUR][1000 genomes]
rs28805077	0.86[AMR][1000 genomes]
rs28808908	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28844368	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs28882210	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2891001	0.82[EUR][1000 genomes]
rs3119700	0.94[EUR][1000 genomes]
rs3122705	0.88[EUR][1000 genomes]
rs3129711	0.91[EUR][1000 genomes]
rs365710	0.94[EUR][1000 genomes]
rs381205	0.91[EUR][1000 genomes]
rs399808	0.82[EUR][1000 genomes]
rs413356	0.88[EUR][1000 genomes]
rs415157	0.91[EUR][1000 genomes]
rs418153	0.85[EUR][1000 genomes]
rs424131	0.82[EUR][1000 genomes]
rs443563	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs592452	0.91[EUR][1000 genomes]
rs7021840	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs741930	0.82[EUR][1000 genomes]
rs7852936	0.88[EUR][1000 genomes]
rs7860339	1.00[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs796391	0.91[EUR][1000 genomes]
rs811282	0.94[EUR][1000 genomes]
rs909323	0.83[AMR][1000 genomes]
rs926154	0.82[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv517975	chr9:15286446-15534070	Weak transcription Genic enhancers Active TSS Flanking Active TSS Enhancers Strong transcription ZNF genes & repeats 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	23 gene(s)	inside rSNPs	diseases
2	nsv892625	chr9:15326251-16064850	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
3	nsv892626	chr9:15389610-15694690	Flanking Active TSS Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv892627	chr9:15397969-15909450	Enhancers Flanking Active TSS Strong transcription Weak transcription Genic enhancers Active TSS ZNF genes & repeats 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	28 gene(s)	inside rSNPs	diseases
5	nsv892628	chr9:15420805-15528290	Strong transcription Active TSS Weak transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	21 gene(s)	inside rSNPs	diseases
6	nsv892629	chr9:15516375-15634326	Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
7	nsv968597	chr9:15522707-15527787	Enhancers Weak transcription	TF binding region Chromatin interactive region lncRNA	2 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	chr9:15523000-15528200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell

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