Variant report

Variant	rs58899615
Chromosome Location	chr17:16884713-16884714
allele	A/G
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	BHLHE40	chr17:16884045-16885056	GM12878	blood:	n/a	n/a
2	MAX	chr17:16884574-16884838	H1-hESC	embryonic stem cell:	n/a	chr17:16884749-16884759
3	ATF2	chr17:16883876-16885053	GM12878	blood:	n/a	n/a
4	POLR2A	chr17:16884046-16884925	GM18951	blood:	n/a	n/a
5	EBF1	chr17:16884012-16884849	GM12878	blood:	n/a	chr17:16884268-16884281 chr17:16884270-16884279 chr17:16884268-16884279 chr17:16884270-16884279 chr17:16884269-16884279
6	CHD2	chr17:16884067-16885031	GM12878	blood:	n/a	n/a
7	CREB1	chr17:16884025-16885126	GM12878	blood:	n/a	n/a
8	MAX	chr17:16884108-16885003	GM12878	blood:	n/a	chr17:16884749-16884759
9	POLR2A	chr17:16884044-16885410	GM19099	blood:	n/a	n/a
10	PAX5	chr17:16883830-16885115	GM12878	blood:	n/a	n/a
11	BCL11A	chr17:16884551-16884902	GM12878	blood:	n/a	n/a
12	RUNX3	chr17:16883904-16885045	GM12878	blood:	n/a	n/a
13	POLR2A	chr17:16883981-16884963	GM12878	blood:	n/a	n/a
14	STAT5A	chr17:16884041-16885033	GM12878	blood:	n/a	n/a
15	TCF12	chr17:16884500-16885009	GM12878	blood:	n/a	n/a
16	TBL1XR1	chr17:16884126-16885022	GM12878	blood:	n/a	n/a
17	RUNX3	chr17:16883872-16885121	GM12878	blood:	n/a	n/a
18	MTA3	chr17:16883380-16885310	GM12878	blood:	n/a	n/a
19	WRNIP1	chr17:16884148-16885093	GM12878	blood:	n/a	n/a
20	STAT5A	chr17:16883850-16885123	GM12878	blood:	n/a	n/a
21	MTA3	chr17:16883959-16885122	GM12878	blood:	n/a	n/a
22	POLR2A	chr17:16883690-16885128	GM12878	blood:	n/a	n/a
23	MAZ	chr17:16884042-16885008	GM12878	blood:	n/a	chr17:16884749-16884759
24	RFX5	chr17:16884641-16884840	GM12878	blood:	n/a	n/a
25	TCF3	chr17:16884063-16885207	GM12878	blood:	n/a	chr17:16884873-16884887
26	POLR2A	chr17:16884121-16884877	GM12878	blood:	n/a	n/a
27	TCF12	chr17:16884490-16885062	GM12878	blood:	n/a	n/a
28	POLR2A	chr17:16884026-16885046	GM12878	blood:	n/a	n/a
29	PAX5	chr17:16883966-16885007	GM12878	blood:	n/a	n/a
30	SMC3	chr17:16884057-16885050	GM12878	blood:	n/a	n/a
31	MXI1	chr17:16884079-16885040	GM12878	blood:	n/a	n/a
32	FOXM1	chr17:16884382-16885090	GM12878	blood:	n/a	n/a
33	POLR2A	chr17:16884098-16884948	GM15510	blood:	n/a	n/a
34	BCLAF1	chr17:16884067-16884894	GM12878	blood:	n/a	n/a
35	TBP	chr17:16884044-16885063	GM12878	blood:	n/a	n/a
36	EP300	chr17:16884062-16885036	GM12878	blood:	n/a	n/a
37	EP300	chr17:16884468-16885066	GM12878	blood:	n/a	n/a
38	NFIC	chr17:16883450-16885037	GM12878	blood:	n/a	n/a
39	IRF4	chr17:16884114-16884946	GM12878	blood:	n/a	n/a
40	TCF3	chr17:16884103-16885089	GM12878	blood:	n/a	chr17:16884873-16884887
41	IKZF1	chr17:16884017-16884903	GM12878	blood:	n/a	n/a
42	POLR2A	chr17:16884081-16884982	GM19193	blood:	n/a	n/a
43	EBF1	chr17:16883960-16884919	GM12878	blood:	n/a	chr17:16884268-16884281 chr17:16884270-16884279 chr17:16884268-16884279 chr17:16884270-16884279 chr17:16884269-16884279
44	USF2	chr17:16884527-16884964	GM12878	blood:	n/a	n/a
45	POLR2A	chr17:16884137-16885004	GM12878	blood:	n/a	n/a
46	CHD1	chr17:16884066-16885088	GM12878	blood:	n/a	n/a
47	EP300	chr17:16884617-16884985	GM12878	blood:	n/a	n/a
48	POLR2A	chr17:16883944-16885076	GM12892	blood:	n/a	n/a
49	NFATC1	chr17:16884010-16885082	GM12878	blood:	n/a	n/a
50	ATF2	chr17:16884500-16884935	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
ENSG00000230709	TF binding region

Extended variants
information (count: 7 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs3751992	0.83[EUR][1000 genomes]
rs58627875	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1058448	chr17:16389870-16926287	Enhancers Bivalent Enhancer Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
2	nsv1058863	chr17:16812121-16943780	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
3	nsv543227	chr17:16812121-16943780	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	17 gene(s)	inside rSNPs	diseases
4	esv2761948	chr17:16868561-16920568	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv543230	chr17:16878578-16892465	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:16875200-16885800	Enhancers	Primary B cells from cord blood	blood
2	chr17:16875800-16887200	Enhancers	Primary B cells from peripheral blood	blood
3	chr17:16881600-16889800	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr17:16883200-16885200	Flanking Active TSS	GM12878-XiMat	blood
5	chr17:16883400-16884800	Enhancers	NHDF-Ad	bronchial
6	chr17:16883800-16884800	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr17:16883800-16885600	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr17:16884000-16887000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
9	chr17:16884200-16884800	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
10	chr17:16884200-16884800	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr17:16884200-16884800	Enhancers	Hela-S3	cervix
12	chr17:16884200-16885000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
13	chr17:16884200-16885000	Enhancers	Rectal Mucosa Donor 29	rectum
14	chr17:16884200-16885600	Enhancers	Fetal Thymus	thymus
15	chr17:16884200-16885800	Enhancers	Fetal Heart	heart
16	chr17:16884400-16884800	Enhancers	Placenta Amnion	Placenta Amnion
17	chr17:16884400-16884800	Enhancers	Sigmoid Colon	Sigmoid Colon
18	chr17:16884400-16890000	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr17:16884600-16889600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links