Variant report

Variant	rs62023492
Chromosome Location	chr15:53087132-53087133
allele	C/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	TEAD4	chr15:53086990-53087287	H1-hESC	embryonic stem cell:	n/a	n/a
2	CTBP2	chr15:53086521-53088992	H1-hESC	embryonic stem cell:	n/a	n/a
3	ZNF143	chr15:53087047-53087223	H1-hESC	embryonic stem cell:	n/a	n/a
4	CHD2	chr15:53086552-53087160	H1-hESC	embryonic stem cell:	n/a	n/a
5	GATA3	chr15:53086903-53087312	MCF-7	breast:	n/a	n/a
6	TEAD4	chr15:53086858-53087345	H1-hESC	embryonic stem cell:	n/a	n/a
7	RAD21	chr15:53087016-53087190	H1-hESC	embryonic stem cell:	n/a	n/a
8	SUZ12	chr15:53086684-53088933	H1-hESC	embryonic stem cell:	n/a	n/a

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-MAPK6-11	chr15:53086548-53087549	XLOC_011257

Variant related genes	Relation type
ONECUT1	TF binding region

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs1357	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs16965171	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs16965179	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs55781920	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs61735385	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62023486	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62023487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs62023488	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs62023489	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs62023490	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs62023493	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs8025128	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv471245	chr15:52607262-53187165	Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	52 gene(s)	inside rSNPs	diseases
2	nsv1041421	chr15:52661342-53148286	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases
3	nsv457142	chr15:53041887-53091896	Flanking Bivalent TSS/Enh Enhancers Bivalent Enhancer Bivalent/Poised TSS Active TSS Weak transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
4	nsv569427	chr15:53041887-53091896	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	n/a
5	nsv1046970	chr15:53065114-53142386	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	n/a
6	nsv569428	chr15:53069874-53140045	Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Enhancers Bivalent/Poised TSS Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:53083600-53088400	Weak transcription	Pancreas	Pancrea
2	chr15:53083600-53088600	Weak transcription	Liver	Liver
3	chr15:53086600-53087200	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
4	chr15:53086600-53087400	Flanking Bivalent TSS/Enh	iPS-15b Cell Line	embryonic stem cell
5	chr15:53086600-53087800	Bivalent/Poised TSS	H9 Cell Line	embryonic stem cell
6	chr15:53086800-53087200	Bivalent Enhancer	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr15:53086800-53087200	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
8	chr15:53086800-53087200	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
9	chr15:53086800-53087200	Flanking Bivalent TSS/Enh	iPS-20b Cell Line	embryonic stem cell
10	chr15:53086800-53087200	Flanking Bivalent TSS/Enh	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr15:53086800-53087200	Flanking Bivalent TSS/Enh	ES-UCSF4 Cell Line	embryonic stem cell
12	chr15:53086800-53087200	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr15:53086800-53087200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
14	chr15:53086800-53087400	Flanking Bivalent TSS/Enh	HUES48 Cell Line	embryonic stem cell
15	chr15:53086800-53087400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
16	chr15:53086800-53087800	Flanking Bivalent TSS/Enh	H1 Cell Line	embryonic stem cell
17	chr15:53086800-53087800	Bivalent Enhancer	Primary T helper cells PMA-I stimulated	--
18	chr15:53086800-53088000	Bivalent Enhancer	Cortex derived primary cultured neurospheres	brain
19	chr15:53087000-53087200	Bivalent Enhancer	Primary T helper 17 cells PMA-I stimulated	--
20	chr15:53087000-53088200	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
21	chr15:53087000-53088600	Bivalent Enhancer	iPS DF 6.9 Cell Line	embryonic stem cell

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