Variant report

Variant	rs9905793
Chromosome Location	chr17:46635649-46635650
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	CHD1	chr17:46628704-46638012	IMR90	lung:	n/a	chr17:46633605-46633615
2	POLR2A	chr17:46629941-46645329	PANC-1	pancreas:	n/a	n/a
3	SUZ12	chr17:46635256-46637739	NT2-D1	testis:	n/a	n/a
4	POLR2A	chr17:46633030-46638485	PANC-1	pancreas:	n/a	n/a
5	SUZ12	chr17:46635476-46635750	H1-hESC	embryonic stem cell:	n/a	n/a

Variant related genes	Relation type
HOXB3	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs11652148	0.87[ASN][1000 genomes]
rs2288276	0.80[AMR][1000 genomes]
rs2288277	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs2288279	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4646992	0.90[AFR][1000 genomes];0.98[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4793580	0.91[ASN][1000 genomes]
rs6504380	0.87[ASN][1000 genomes]
rs6504389	0.87[ASN][1000 genomes]
rs733920	0.87[ASN][1000 genomes]
rs7405452	0.84[AMR][1000 genomes]
rs7406170	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs7406324	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7406910	0.81[AMR][1000 genomes]
rs7503053	0.87[ASN][1000 genomes]
rs7503235	0.87[ASN][1000 genomes]
rs890431	0.83[AMR][1000 genomes]
rs9221	0.83[AMR][1000 genomes]
rs9903182	0.83[AMR][1000 genomes]
rs9907987	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:21 , 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	nsv908577	chr17:46584900-46704536	Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Strong transcription Enhancers Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	343 gene(s)	inside rSNPs	diseases
4	nsv908578	chr17:46592413-46698710	Flanking Bivalent TSS/Enh Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Bivalent/Poised TSS 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	335 gene(s)	inside rSNPs	diseases
5	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
6	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
7	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
8	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
9	nsv908580	chr17:46609103-46698710	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Enhancers Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	335 gene(s)	inside rSNPs	diseases
10	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
11	nsv575480	chr17:46617019-46684929	Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Strong transcription Enhancers Weak transcription Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	322 gene(s)	inside rSNPs	diseases
12	nsv908582	chr17:46617019-46698710	Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Bivalent/Poised TSS Enhancers Genic enhancers Weak transcription Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
13	nsv908583	chr17:46617019-46704536	Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	342 gene(s)	inside rSNPs	diseases
14	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
15	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
16	nsv457822	chr17:46620402-46698710	Flanking Active TSS Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	334 gene(s)	inside rSNPs	diseases
17	nsv575481	chr17:46620402-46698710	Bivalent/Poised TSS Active TSS Flanking Active TSS Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh 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	334 gene(s)	inside rSNPs	diseases
18	nsv457823	chr17:46620402-46704536	Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh 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	342 gene(s)	inside rSNPs	diseases
19	nsv575482	chr17:46620402-46704536	Active TSS Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	342 gene(s)	inside rSNPs	diseases
20	nsv457824	chr17:46625519-46693491	Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Enhancers Bivalent/Poised 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	332 gene(s)	inside rSNPs	diseases
21	nsv575483	chr17:46625519-46693491	Flanking Active TSS Bivalent Enhancer Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	332 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr17:46627400-46637600	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr17:46632600-46636000	Enhancers	Sigmoid Colon	Sigmoid Colon
3	chr17:46633200-46636200	Flanking Active TSS	Stomach Smooth Muscle	stomach
4	chr17:46633200-46638000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr17:46633400-46637400	Weak transcription	Aorta	Aorta
6	chr17:46633400-46641000	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr17:46633600-46635800	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr17:46633600-46638400	Transcr. at gene 5' and 3'	NHLF	lung
9	chr17:46633600-46638600	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
10	chr17:46633800-46635800	Flanking Active TSS	Duodenum Smooth Muscle	Duodenum
11	chr17:46633800-46636800	Enhancers	Colonic Mucosa	Colon
12	chr17:46633800-46638600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
13	chr17:46634200-46635800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
14	chr17:46634200-46638800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr17:46634400-46636000	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr17:46634400-46637200	Active TSS	Esophagus	oesophagus
17	chr17:46634800-46636000	Bivalent Enhancer	Fetal Intestine Small	intestine
18	chr17:46634800-46636000	Bivalent Enhancer	Fetal Muscle Trunk	muscle
19	chr17:46634800-46636200	Enhancers	Fetal Kidney	kidney
20	chr17:46634800-46637200	Bivalent Enhancer	HUES6 Cell Line	embryonic stem cell
21	chr17:46634800-46637800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
22	chr17:46634800-46638600	Weak transcription	HSMMtube	muscle
23	chr17:46634800-46639000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr17:46635000-46636000	Enhancers	Colon Smooth Muscle	Colon
25	chr17:46635000-46636000	Enhancers	Rectal Mucosa Donor 29	rectum
26	chr17:46635000-46636400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr17:46635000-46636400	Weak transcription	A549	lung
28	chr17:46635000-46636800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
29	chr17:46635000-46636800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
30	chr17:46635000-46636800	Weak transcription	Spleen	Spleen
31	chr17:46635000-46638000	Weak transcription	Primary hematopoietic stem cells	blood
32	chr17:46635000-46638800	Weak transcription	HSMM	muscle
33	chr17:46635000-46639400	Weak transcription	Placenta Amnion	Placenta Amnion
34	chr17:46635000-46654600	Weak transcription	Hela-S3	cervix
35	chr17:46635200-46635800	Bivalent Enhancer	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr17:46635200-46637200	Flanking Bivalent TSS/Enh	Fetal Lung	lung
37	chr17:46635200-46637800	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr17:46635400-46635800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell
39	chr17:46635400-46635800	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
40	chr17:46635400-46635800	Bivalent Enhancer	Fetal Intestine Large	intestine
41	chr17:46635400-46635800	Flanking Bivalent TSS/Enh	NH-A	brain
42	chr17:46635400-46636000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr17:46635400-46636400	Flanking Active TSS	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
44	chr17:46635400-46636400	Weak transcription	Adipose Nuclei	Adipose
45	chr17:46635400-46636800	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
46	chr17:46635600-46635800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
47	chr17:46635600-46636200	Transcr. at gene 5' and 3'	Fetal Stomach	stomach
48	chr17:46635600-46636800	Active TSS	NHDF-Ad	bronchial
49	chr17:46635600-46637000	Weak transcription	K562	blood
50	chr17:46635600-46637400	Flanking Active TSS	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links