Variant report

Variant	rs17347644
Chromosome Location	chr3:101547733-101547734
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:30)
CpG islands
(count:0)
Chromatin interactive
region (count:6)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:30 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ATF2	chr3:101547658-101548382	GM12878	blood:	n/a	chr3:101547730-101547737
2	POLR2A	chr3:101545970-101549723	GM12878	blood:	n/a	n/a
3	CREB1	chr3:101547540-101549160	GM12878	blood:	n/a	n/a
4	FOXM1	chr3:101547718-101548369	GM12878	blood:	n/a	n/a
5	POLR2A	chr3:101547645-101548510	GM12891	blood:	n/a	n/a
6	POLR2A	chr3:101546020-101550047	GM12878	blood:	n/a	n/a
7	POLR2A	chr3:101545966-101548189	MCF10A-Er-Src	breast:	n/a	n/a
8	POLR2A	chr3:101547122-101548611	GM12891	blood:	n/a	n/a
9	POLR2A	chr3:101546440-101549098	GM12891	blood:	n/a	n/a
10	POLR2A	chr3:101547708-101548662	GM12892	blood:	n/a	n/a
11	POLR2A	chr3:101547219-101548617	GM12892	blood:	n/a	n/a
12	POLR2A	chr3:101546030-101548421	GM12878	blood:	n/a	n/a
13	POLR2A	chr3:101546013-101548953	GM18505	blood:	n/a	n/a
14	MTA3	chr3:101545885-101549139	GM12878	blood:	n/a	n/a
15	POLR2A	chr3:101546141-101548426	IMR90	lung:	n/a	n/a
16	POLR2A	chr3:101546007-101548432	Raji	blood:	n/a	n/a
17	MAX	chr3:101547696-101548356	GM12878	blood:	n/a	chr3:101548105-101548116
18	PML	chr3:101547494-101549177	GM12878	blood:	n/a	n/a
19	POLR2A	chr3:101547726-101547930	MCF10A-Er-Src	breast:	n/a	n/a
20	POLR2A	chr3:101545998-101549072	GM12892	blood:	n/a	n/a
21	POLR2A	chr3:101545992-101550685	GM12891	blood:	n/a	n/a
22	NFATC1	chr3:101547675-101548568	GM12878	blood:	n/a	n/a
23	POLR2A	chr3:101545973-101549728	GM12878	blood:	n/a	n/a
24	MXI1	chr3:101547622-101548537	GM12878	blood:	n/a	n/a
25	POLR2A	chr3:101546127-101547783	GM12892	blood:	n/a	n/a
26	MXI1	chr3:101545935-101547784	IMR90	lung:	n/a	n/a
27	CHD1	chr3:101546026-101549293	GM12878	blood:	n/a	n/a
28	ATF2	chr3:101547628-101549193	GM12878	blood:	n/a	chr3:101547730-101547737
29	ZNF263	chr3:101547557-101548489	HEK293-T-REx	kidney:	n/a	n/a
30	POLR2A	chr3:101546443-101547789	GM12891	blood:	n/a	n/a

No data

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

No.	Distal block	Cell Line	Cell type
1	chr3:101547017..101548528-chr3:101567687..101569494,2	K562	blood:
2	chr3:101546905..101548407-chr3:101551219..101553044,2	MCF-7	breast:
3	chr20:45943137..45945781-chr3:101546721..101548950,2	MCF-7	breast:
4	chr3:101543661..101554550-chr3:101566310..101574179,30	MCF-7	breast:
5	chr3:101544475..101550800-chr3:101565965..101572617,10	K562	blood:
6	chr3:101547198..101549505-chr3:101556556..101560053,3	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000249474	TF binding region
ENSG00000263770	Chromatin interaction
ENSG00000144802	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:56)

rs_ID	r²[population]
rs1031710	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11706494	0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11706986	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11707250	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11711903	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11712309	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11712888	0.83[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11714278	0.81[EUR][1000 genomes]
rs11714444	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11716558	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11717046	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11717638	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11718446	0.87[AFR][1000 genomes];0.85[ASN][1000 genomes]
rs11720745	0.84[EUR][1000 genomes]
rs11914318	0.87[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12631513	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12633089	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12633770	0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs13060963	0.81[EUR][1000 genomes]
rs13065944	0.83[EUR][1000 genomes]
rs13066768	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13068350	0.83[EUR][1000 genomes]
rs13077925	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13078652	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13084113	0.85[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13084432	0.82[EUR][1000 genomes]
rs13085776	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13094753	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13094911	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13099674	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1460097	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17347156	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1963961	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1963962	0.83[EUR][1000 genomes]
rs2290859	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2318090	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34063583	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34161138	0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34181125	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34263427	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34376498	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34648996	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34743741	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34947019	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs34963630	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35117343	0.85[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35315807	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs35799195	0.85[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35810977	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35850993	0.83[EUR][1000 genomes]
rs36002990	0.83[EUR][1000 genomes]
rs4342086	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58658478	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs61396602	0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs62284198	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs62284199	0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv497784	chr3:101315009-102092989	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	87 gene(s)	inside rSNPs	diseases
2	nsv997407	chr3:101384031-101611391	Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	nsv536675	chr3:101384031-101611391	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
4	esv3351469	chr3:101511702-101866448	Weak transcription Enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	51 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:122 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:101539800-101548000	Weak transcription	Hela-S3	cervix
2	chr3:101541000-101548000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr3:101545600-101549200	Active TSS	Breast Myoepithelial Primary Cells	Breast
4	chr3:101546000-101547800	Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr3:101546000-101547800	Flanking Active TSS	Primary hematopoietic stem cells	blood
6	chr3:101546000-101547800	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
7	chr3:101546000-101547800	Active TSS	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr3:101546000-101547800	Active TSS	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr3:101546000-101547800	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
10	chr3:101546000-101547800	Active TSS	Rectal Mucosa Donor 29	rectum
11	chr3:101546000-101547800	Active TSS	Right Atrium	heart
12	chr3:101546000-101547800	Active TSS	Stomach Smooth Muscle	stomach
13	chr3:101546000-101547800	Active TSS	HSMM	muscle
14	chr3:101546000-101547800	Active TSS	HSMMtube	muscle
15	chr3:101546000-101548000	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
16	chr3:101546000-101548200	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
17	chr3:101546000-101548200	Active TSS	Aorta	Aorta
18	chr3:101546000-101548400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr3:101546200-101548400	Flanking Active TSS	Primary B cells from cord blood	blood
20	chr3:101546400-101547800	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr3:101546400-101547800	Active TSS	HMEC	breast
22	chr3:101546400-101548200	Flanking Active TSS	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr3:101546600-101548000	Active TSS	Brain Germinal Matrix	brain
24	chr3:101546600-101548200	Active TSS	GM12878-XiMat	blood
25	chr3:101546800-101547800	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr3:101546800-101548000	Active TSS	Primary T helper 17 cells PMA-I stimulated	--
27	chr3:101546800-101548000	Weak transcription	Gastric	stomach
28	chr3:101546800-101548400	Flanking Active TSS	Liver	Liver
29	chr3:101546800-101553000	Weak transcription	Spleen	Spleen
30	chr3:101547000-101547800	Weak transcription	Esophagus	oesophagus
31	chr3:101547000-101547800	Weak transcription	Left Ventricle	heart
32	chr3:101547000-101547800	Weak transcription	Pancreas	Pancrea
33	chr3:101547000-101547800	Weak transcription	Sigmoid Colon	Sigmoid Colon
34	chr3:101547000-101547800	Weak transcription	Small Intestine	intestine
35	chr3:101547000-101548000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr3:101547000-101548000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr3:101547000-101548000	Weak transcription	H9 Cell Line	embryonic stem cell
38	chr3:101547000-101548000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
39	chr3:101547000-101548000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
40	chr3:101547000-101548000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
41	chr3:101547000-101548000	Weak transcription	Lung	lung
42	chr3:101547000-101548000	Weak transcription	Ovary	ovary
43	chr3:101547000-101548400	Flanking Active TSS	Muscle Satellite Cultured Cells	--
44	chr3:101547000-101549200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
45	chr3:101547000-101552400	Weak transcription	Fetal Brain Female	brain
46	chr3:101547000-101561000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
47	chr3:101547200-101547800	Weak transcription	Placenta	Placenta
48	chr3:101547200-101548000	Flanking Active TSS	Primary T killer naive cells fromperipheralblood	blood
49	chr3:101547200-101548000	Flanking Active TSS	Pancreatic Islets	Pancreatic Islet
50	chr3:101547200-101548000	Flanking Active TSS	Rectal Smooth Muscle	rectum

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links