Variant report

Variant	rs9901839
Chromosome Location	chr17:46705301-46705302
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:32)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:32 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	JUND	chr17:46705298-46705573	K562	blood:	n/a	n/a
2	POLR2A	chr17:46701823-46705617	K562	blood:	n/a	n/a
3	HEY1	chr17:46705251-46705437	K562	blood:	n/a	n/a
4	MYC	chr17:46705299-46705734	K562	blood:	n/a	n/a
5	POLR2A	chr17:46701890-46705619	K562	blood:	n/a	n/a
6	YY1	chr17:46705084-46705648	K562	blood:	n/a	n/a
7	CCNT2	chr17:46705142-46705397	K562	blood:	n/a	n/a
8	TBP	chr17:46705063-46705602	K562	blood:	n/a	n/a
9	POLR2A	chr17:46692107-46708447	PANC-1	pancreas:	n/a	n/a
10	POLR2A	chr17:46701690-46705809	K562	blood:	n/a	n/a
11	POLR2A	chr17:46705069-46705595	HCT-116	colon:	n/a	n/a
12	UBTF	chr17:46704759-46707390	K562	blood:	n/a	n/a
13	POLR2A	chr17:46695067-46708834	K562	blood:	n/a	n/a
14	POLR2A	chr17:46685805-46708856	PANC-1	pancreas:	n/a	n/a
15	TBL1XR1	chr17:46705039-46705566	K562	blood:	n/a	n/a
16	BHLHE40	chr17:46705265-46705607	K562	blood:	n/a	n/a
17	EGR1	chr17:46705230-46705562	K562	blood:	n/a	n/a
18	SUZ12	chr17:46705252-46705597	H1-hESC	embryonic stem cell:	n/a	n/a
19	EGR1	chr17:46705284-46705578	K562	blood:	n/a	n/a
20	ZBTB7A	chr17:46704739-46705462	K562	blood:	n/a	n/a
21	ZMIZ1	chr17:46705145-46705543	K562	blood:	n/a	n/a
22	MAZ	chr17:46702137-46705806	K562	blood:	n/a	chr17:46703964-46703973 chr17:46703065-46703075 chr17:46703749-46703759 chr17:46704706-46704715
23	EP300	chr17:46705297-46705605	K562	blood:	n/a	n/a
24	RCOR1	chr17:46705209-46705582	K562	blood:	n/a	n/a
25	MAX	chr17:46705299-46705633	K562	blood:	n/a	n/a
26	POLR2A	chr17:46702318-46705449	K562	blood:	n/a	n/a
27	POLR2A	chr17:46701810-46705548	K562	blood:	n/a	n/a
28	MAX	chr17:46705079-46705725	K562	blood:	n/a	n/a
29	UBTF	chr17:46704872-46705471	K562	blood:	n/a	n/a
30	POLR2A	chr17:46705030-46705406	HCT-116	colon:	n/a	n/a
31	TAL1	chr17:46705264-46705533	K562	blood:	n/a	n/a
32	RCOR1	chr17:46705248-46705498	K562	blood:	n/a	n/a

No data

(count:6 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr17:46701571..46706598-chr17:47072048..47076281,6	K562	blood:
2	chr17:46618868..46624573-chr17:46700689..46705978,10	K562	blood:
3	chr17:46702795..46705458-chr17:47072563..47074933,4	K562	blood:
4	chr17:46705274..46707056-chr17:46708654..46710864,2	MCF-7	breast:
5	chr17:46685746..46689281-chr17:46702801..46705653,3	MCF-7	breast:
6	chr17:46686493..46690300-chr17:46702976..46707350,6	MCF-7	breast:

No data

Variant related genes	Relation type
HOXB-AS4	TF binding region
HOXB9	TF binding region
ENSG00000210741	Chromatin interaction
ENSG00000159217	Chromatin interaction
ENSG00000260027	Chromatin interaction
ENSG00000173917	Chromatin interaction
ENSG00000250838	Chromatin interaction
ENSG00000230148	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11079823	1.00[EUR][1000 genomes]
rs4459585	1.00[EUR][1000 genomes]
rs4794741	1.00[EUR][1000 genomes]
rs6416943	1.00[EUR][1000 genomes]
rs6504322	1.00[EUR][1000 genomes]
rs6504326	1.00[EUR][1000 genomes]
rs6504339	1.00[EUR][1000 genomes]
rs7224409	1.00[EUR][1000 genomes]
rs72829902	0.81[AFR][1000 genomes]
rs7502340	1.00[EUR][1000 genomes]
rs8182315	1.00[EUR][1000 genomes]
rs9893509	0.89[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs9906920	1.00[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833469	chr17:46491849-46709406	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases
2	esv3420538	chr17:46504944-46861553	Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	369 gene(s)	inside rSNPs	diseases
3	nsv908579	chr17:46592413-46727289	Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Enhancers Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases
4	nsv532113	chr17:46598247-47588570	Genic enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Enhancers Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	453 gene(s)	inside rSNPs	diseases
5	esv2758459	chr17:46602673-46836837	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	364 gene(s)	inside rSNPs	diseases
6	esv2758694	chr17:46602673-46836837	Active TSS Bivalent Enhancer Bivalent/Poised TSS Weak transcription Flanking Bivalent TSS/Enh Enhancers Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	364 gene(s)	inside rSNPs	diseases
7	nsv908581	chr17:46610646-46735520	Bivalent Enhancer Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	349 gene(s)	inside rSNPs	diseases
8	nsv833471	chr17:46617787-46783345	Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	356 gene(s)	inside rSNPs	diseases
9	nsv908584	chr17:46618926-46735520	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	348 gene(s)	inside rSNPs	diseases
10	nsv543380	chr17:46686151-46721371	Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46704600-46706400	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
2	chr17:46704800-46705400	Bivalent Enhancer	Colonic Mucosa	Colon
3	chr17:46704800-46705600	Flanking Active TSS	K562	blood
4	chr17:46704800-46706200	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell
5	chr17:46705000-46708400	Weak transcription	A549	lung
6	chr17:46705200-46705400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr17:46705200-46705600	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
8	chr17:46705200-46705800	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links