Variant report

Variant	rs5907612
Chromosome Location	chrX:138726211-138726212
allele	A/G
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:0)
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	STAT3	chrX:138726117-138726225	MCF10A-Er-Src	breast:	n/a	n/a

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

No.	Chromosome Location	Cell Line	Cell type	Cell Stage
1	chrX:138726210-138726260	GM19239	blood:	n/a
2	chrX:138726210-138726260	AG09319	gingival:	n/a
3	chrX:138726210-138726260	HCM	heart:	n/a
4	chrX:138726210-138726260	PFSK-1	brain:	n/a
5	chrX:138726210-138726260	HRPEpiC	eye:	n/a
6	chrX:138726210-138726260	ECC-1	luminal epithelium:	n/a
7	chrX:138726210-138726260	HCF	heart:	n/a
8	chrX:138726210-138726260	Caco-2	colon:	n/a
9	chrX:138726210-138726260	PrEC	prostate:	n/a
10	chrX:138726210-138726260	HCT-116	colon:	n/a
11	chrX:138726210-138726260	HCPEpiC	choroid plexus:	n/a
12	chrX:138726210-138726260	AG04450	lung:	fetal
13	chrX:138726210-138726260	AG10803	skin:	n/a
14	chrX:138726210-138726260	H1-hESC	embryonic stem cell:	embryo
15	chrX:138726210-138726260	RPTEC	kidney:	n/a
16	chrX:138726210-138726260	NB4	blood:	n/a
17	chrX:138726210-138726260	HMEC	breast:	n/a
18	chrX:138726210-138726260	AG04449	skin:	fetal
19	chrX:138726210-138726260	SK-N-SH_RA	brain:	n/a
20	chrX:138726210-138726260	A549	lung:	n/a
21	chrX:138726210-138726260	AG09309	skin:	n/a
22	chrX:138726210-138726260	HUVEC	blood vessel:	n/a
23	chrX:138726210-138726260	SK-N-SH	brain:	n/a
24	chrX:138726210-138726260	SAEC	small airway:	n/a
25	chrX:138726210-138726260	HNPCEpiC	eye:	n/a
26	chrX:138726210-138726260	LNCaP	prostate:	n/a
27	chrX:138726210-138726260	CMK	blood:	n/a
28	chrX:138726210-138726260	HepG2	liver:	n/a
29	chrX:138726210-138726260	HRCEpiC	kidney:	n/a
30	chrX:138726210-138726260	HAEpiC	amniotic membrane:	n/a
31	chrX:138726210-138726260	NT2-D1	testis:	n/a
32	chrX:138726210-138726260	GM12892	blood:	n/a
33	chrX:138726210-138726260	GM06990	blood:	n/a
34	chrX:138726210-138726260	K562	blood:	n/a
35	chrX:138726210-138726260	SK-N-MC	brain:	n/a
36	chrX:138726210-138726260	MCF-7	breast:	n/a
37	chrX:138726210-138726260	HRE	kidney:	n/a
38	chrX:138726210-138726260	HPAEpiC	pulmonary alveolar:	n/a
39	chrX:138726210-138726260	HL-60	blood:	n/a
40	chrX:138726210-138726260	IMR90	lung:	fetal
41	chrX:138726210-138726260	GM12878	blood:	n/a
42	chrX:138726210-138726260	HIPEpiC	eye:	n/a
43	chrX:138726210-138726260	ovcar-3	ovarian:	n/a
44	chrX:138726210-138726260	SKMC	muscle:	n/a
45	chrX:138726210-138726260	PANC-1	pancreas:	n/a
46	chrX:138726210-138726260	U87	brain:	n/a
47	chrX:138726210-138726260	NH-A	brain:	n/a
48	chrX:138726210-138726260	HEEpiC	esophagus:	n/a
49	chrX:138726210-138726260	NHDF-neo	bronchial:	n/a
50	chrX:138726210-138726260	BJ	skin:	n/a

No data

Variant related genes	Relation type
MCF2	TF binding region
MCF2	CpG island

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10521799	1.00[JPT][hapmap]
rs10521800	1.00[JPT][hapmap]
rs12558975	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap]
rs17002175	1.00[JPT][hapmap]
rs17342379	1.00[JPT][hapmap]
rs2076501	0.84[GIH][hapmap]
rs2076502	1.00[JPT][hapmap]
rs2143400	1.00[CEU][hapmap]
rs2143401	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap]
rs2179546	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.87[MKK][hapmap];1.00[TSI][hapmap]
rs2223618	0.85[GIH][hapmap]
rs2235708	1.00[JPT][hapmap]
rs2235709	1.00[JPT][hapmap]
rs2382951	1.00[CEU][hapmap]
rs2891098	0.91[YRI][hapmap]
rs4824955	0.94[CEU][hapmap];1.00[CHB][hapmap];0.92[CHD][hapmap];0.96[GIH][hapmap];0.89[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs5907047	1.00[CEU][hapmap];0.84[JPT][hapmap]
rs5907597	1.00[CEU][hapmap];0.96[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs5907599	1.00[CEU][hapmap]
rs5907604	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap]
rs5907605	1.00[CEU][hapmap]
rs5907606	1.00[CEU][hapmap];1.00[GIH][hapmap];0.89[MKK][hapmap];1.00[TSI][hapmap]
rs5907607	0.91[TSI][hapmap]
rs5953495	0.84[ASW][hapmap];1.00[CEU][hapmap];0.96[GIH][hapmap];0.80[LWK][hapmap];0.94[MEX][hapmap];0.81[MKK][hapmap];1.00[TSI][hapmap]
rs5954048	1.00[CEU][hapmap];1.00[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs6528647	1.00[CEU][hapmap];0.96[GIH][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap]
rs6634087	1.00[JPT][hapmap]
rs7059372	1.00[CHB][hapmap]
rs909990	1.00[CEU][hapmap]
rs909991	0.88[CEU][hapmap];1.00[GIH][hapmap];0.94[MEX][hapmap];1.00[TSI][hapmap]
rs909992	1.00[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv532935	chrX:138281469-138764448	Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
2	nsv482267	chrX:138669319-138817041	Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
3	nsv532936	chrX:138687855-139384681	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	148 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:0 , 50 per page) page:

No data

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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