Variant report

Variant	rs58042425
Chromosome Location	chr15:40779069-40779070
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:1)
CpG islands
(count:61)
Chromatin interactive
region (count:3)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

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

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:40778908-40779117	MCF-7	breast:	n/a	n/a

(count:61 , 50 per page) page: 1 2

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chr15:40779019-40779069	HPAEpiC	pulmonary alveolar:	n/a
2	chr15:40779019-40779069	Jurkat	blood:	n/a
3	chr15:40779019-40779069	MCF10A-Er-Src	breast:	n/a
4	chr15:40779019-40779069	NT2-D1	testis:	n/a
5	chr15:40779019-40779069	K562	blood:	n/a
6	chr15:40779019-40779069	BJ	skin:	n/a
7	chr15:40779019-40779069	AG04449	skin:	fetal
8	chr15:40779019-40779069	SK-N-MC	brain:	n/a
9	chr15:40779019-40779069	HIPEpiC	eye:	n/a
10	chr15:40779019-40779069	NB4	blood:	n/a
11	chr15:40779019-40779069	HCT-116	colon:	n/a
12	chr15:40779019-40779069	AG04450	lung:	fetal
13	chr15:40779019-40779069	HCM	heart:	n/a
14	chr15:40779019-40779069	SK-N-SH	brain:	n/a
15	chr15:40779019-40779069	GM12891	blood:	n/a
16	chr15:40779019-40779069	A549	lung:	n/a
17	chr15:40779019-40779069	HUVEC	blood vessel:	n/a
18	chr15:40779019-40779069	PANC-1	pancreas:	n/a
19	chr15:40779019-40779069	SK-N-SH_RA	brain:	n/a
20	chr15:40779019-40779069	MCF-7	breast:	n/a
21	chr15:40779019-40779069	GM19239	blood:	n/a
22	chr15:40779019-40779069	AG10803	skin:	n/a
23	chr15:40779019-40779069	HEEpiC	esophagus:	n/a
24	chr15:40779019-40779069	HRE	kidney:	n/a
25	chr15:40779019-40779069	H1-hESC	embryonic stem cell:	embryo
26	chr15:40779019-40779069	T-47D	breast:	n/a
27	chr15:40779019-40779069	PrEC	prostate:	n/a
28	chr15:40779019-40779069	LNCaP	prostate:	n/a
29	chr15:40779019-40779069	NH-A	brain:	n/a
30	chr15:40779019-40779069	SAEC	small airway:	n/a
31	chr15:40779019-40779069	ovcar-3	ovarian:	n/a
32	chr15:40779019-40779069	GM06990	blood:	n/a
33	chr15:40779019-40779069	Caco-2	colon:	n/a
34	chr15:40779019-40779069	PFSK-1	brain:	n/a
35	chr15:40779019-40779069	Hela-S3	cervix:	n/a
36	chr15:40779019-40779069	AG09319	gingival:	n/a
37	chr15:40779019-40779069	ECC-1	luminal epithelium:	n/a
38	chr15:40779019-40779069	CMK	blood:	n/a
39	chr15:40779019-40779069	HCF	heart:	n/a
40	chr15:40779019-40779069	HEK293	kidney:	embryo
41	chr15:40779019-40779069	HepG2	liver:	n/a
42	chr15:40779019-40779069	HL-60	blood:	n/a
43	chr15:40779019-40779069	HAEpiC	amniotic membrane:	n/a
44	chr15:40779019-40779069	Hepatocyte	liver:	n/a
45	chr15:40779019-40779069	GM12878	blood:	n/a
46	chr15:40779019-40779069	NHBE	bronchial:	n/a
47	chr15:40779019-40779069	IMR90	lung:	fetal
48	chr15:40779019-40779069	U87	brain:	n/a
49	chr15:40779019-40779069	HCPEpiC	choroid plexus:	n/a
50	chr15:40779019-40779069	HMEC	breast:	n/a

(count:3 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:40771099..40773628-chr15:40777295..40779621,2	K562	blood:
2	chr15:40749495..40752457-chr15:40777737..40780228,2	MCF-7	breast:
3	chr15:40768824..40772599-chr15:40776981..40779621,3	K562	blood:

No data

Variant related genes	Relation type
ENSG00000259536	TF binding region
ENSG00000259536	CpG island
ENSG00000244251	Chromatin interaction
ENSG00000140320	Chromatin interaction

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs14363	1.00[EUR][1000 genomes]
rs55984256	1.00[EUR][1000 genomes]
rs56010221	1.00[EUR][1000 genomes]
rs56020318	1.00[EUR][1000 genomes]
rs56195430	1.00[AMR][1000 genomes]
rs56282449	0.89[AFR][1000 genomes]
rs56908156	1.00[EUR][1000 genomes]
rs57134155	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs58870954	1.00[EUR][1000 genomes]
rs58903833	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs61579851	1.00[EUR][1000 genomes]
rs61668695	1.00[AMR][1000 genomes]
rs61678895	1.00[EUR][1000 genomes]
rs6492943	1.00[EUR][1000 genomes]
rs6492946	1.00[EUR][1000 genomes]
rs6492948	1.00[EUR][1000 genomes]
rs6492949	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7162308	1.00[EUR][1000 genomes]
rs7164094	1.00[EUR][1000 genomes]
rs7165233	1.00[EUR][1000 genomes]
rs7165670	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7168197	1.00[EUR][1000 genomes]
rs7173079	1.00[EUR][1000 genomes]
rs7173239	1.00[EUR][1000 genomes]
rs7175153	1.00[EUR][1000 genomes]
rs7176418	1.00[EUR][1000 genomes]
rs7182052	1.00[EUR][1000 genomes]
rs73383123	1.00[EUR][1000 genomes]
rs73383129	1.00[EUR][1000 genomes]
rs73385108	1.00[EUR][1000 genomes]
rs73385110	1.00[EUR][1000 genomes]
rs73385112	1.00[EUR][1000 genomes]
rs73385114	1.00[EUR][1000 genomes]
rs74011172	0.88[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs74011173	1.00[EUR][1000 genomes]
rs74011174	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8023956	1.00[EUR][1000 genomes]
rs8025846	1.00[EUR][1000 genomes]
rs8033915	1.00[EUR][1000 genomes]
rs8034169	0.93[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs8037881	1.00[EUR][1000 genomes]
rs8038243	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8039298	1.00[EUR][1000 genomes]
rs8040231	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs9672591	1.00[EUR][1000 genomes]
rs9672893	1.00[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv34145	chr15:40549617-40889824	Weak transcription Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:40778200-40779200	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr15:40779000-40779600	Enhancers	Placenta	Placenta

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