Variant report

Variant	rs62617784
Chromosome Location	chr2:114736518-114736519
allele	C/T
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	POLR2A	chr2:114734609-114736884	HepG2	liver:	n/a	n/a
2	MYBL2	chr2:114734478-114738477	HepG2	liver:	n/a	n/a
3	CEBPB	chr2:114735042-114736758	HepG2	liver:	n/a	chr2:114735799-114735810
4	TEAD4	chr2:114734792-114736870	HepG2	liver:	n/a	n/a
5	POLR2A	chr2:114736378-114736830	HepG2	liver:	n/a	n/a
6	CHD2	chr2:114734698-114736606	HepG2	liver:	n/a	n/a
7	FOSL2	chr2:114734637-114736836	HepG2	liver:	n/a	chr2:114735695-114735704 chr2:114735694-114735706 chr2:114735697-114735704 chr2:114735971-114735982 chr2:114735696-114735704
8	POLR2A	chr2:114734270-114737182	HepG2	liver:	n/a	n/a
9	POLR2A	chr2:114734593-114736611	HepG2	liver:	n/a	n/a
10	CREB1	chr2:114734601-114737261	HepG2	liver:	n/a	n/a
11	HEY1	chr2:114734625-114737653	HepG2	liver:	n/a	n/a
12	MYBL2	chr2:114734556-114736571	HepG2	liver:	n/a	n/a
13	POLR2A	chr2:114734646-114736832	HepG2	liver:	n/a	n/a
14	CEBPB	chr2:114736450-114736657	HepG2	liver:	n/a	n/a
15	CEBPB	chr2:114735023-114736749	HepG2	liver:	n/a	chr2:114735799-114735810
16	CTCF	chr2:114736500-114736650	GM12867	blood:	n/a	n/a
17	NFIC	chr2:114734581-114736537	HepG2	liver:	n/a	chr2:114735586-114735614 chr2:114736185-114736201
18	MAX	chr2:114734733-114736645	HepG2	liver:	n/a	chr2:114735696-114735705 chr2:114735695-114735704
19	MBD4	chr2:114734503-114736773	HepG2	liver:	n/a	n/a
20	EP300	chr2:114735141-114736524	HepG2	liver:	n/a	chr2:114735695-114735704
21	TBP	chr2:114734757-114736652	HepG2	liver:	n/a	n/a
22	POLR2A	chr2:114735637-114737128	HepG2	liver:	n/a	n/a
23	MBD4	chr2:114734874-114736866	HepG2	liver:	n/a	n/a
24	POLR2A	chr2:114734147-114737194	HepG2	liver:	n/a	n/a
25	NFIC	chr2:114734672-114736609	HepG2	liver:	n/a	chr2:114735586-114735614 chr2:114736185-114736201
26	MAZ	chr2:114734896-114736534	HepG2	liver:	n/a	chr2:114735696-114735705 chr2:114735695-114735704
27	REST	chr2:114735046-114736544	HepG2	liver:	n/a	chr2:114736089-114736109 chr2:114735823-114735830
28	HEY1	chr2:114734582-114736932	HepG2	liver:	n/a	n/a
29	MXI1	chr2:114734998-114738201	HepG2	liver:	n/a	n/a
30	BRCA1	chr2:114734885-114736668	HepG2	liver:	n/a	n/a
31	ARID3A	chr2:114734984-114736556	HepG2	liver:	n/a	n/a
32	RCOR1	chr2:114734688-114736616	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:114727885..114731158-chr2:114732543..114736928,5	K562	blood:
2	chr2:114648039..114650130-chr2:114735368..114736887,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ACTR3-1	chr2:114735195-114737211	NONHSAT073855
2	lnc-SLC35F5-19	chr2:114736482-114737401	NONHSAT073858
3	lnc-ACTR3-1	chr2:114736064-114736831	NONHSAT073854

Variant related genes	Relation type
ENSG00000234199	TF binding region
ENSG00000243179	TF binding region
ENSG00000115091	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10182551	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10182655	0.81[AFR][1000 genomes];0.80[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10195346	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10202743	0.95[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11901777	0.90[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11901908	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12463475	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12472051	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12473069	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13396863	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13398262	0.91[AFR][1000 genomes];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13409114	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs13409146	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13421586	0.94[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17046604	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3866272	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3916120	1.00[ASN][1000 genomes]
rs56351059	0.95[ASN][1000 genomes]
rs6749304	0.80[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs71416578	0.92[AFR][1000 genomes];0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]

No data

Chromatin state (count:56 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:114705200-114737600	Weak transcription	Esophagus	oesophagus
2	chr2:114715000-114744000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr2:114715600-114737000	Weak transcription	Duodenum Smooth Muscle	Duodenum
4	chr2:114718800-114743200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr2:114727600-114736800	Weak transcription	A549	lung
6	chr2:114729600-114737000	Weak transcription	Placenta	Placenta
7	chr2:114732400-114737400	Weak transcription	Lung	lung
8	chr2:114733400-114737400	Weak transcription	GM12878-XiMat	blood
9	chr2:114733400-114741200	Weak transcription	Liver	Liver
10	chr2:114733400-114743800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr2:114733800-114736600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr2:114733800-114736800	Genic enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
13	chr2:114733800-114741600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
14	chr2:114734000-114736800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
15	chr2:114734000-114737200	Enhancers	HMEC	breast
16	chr2:114734000-114737800	Weak transcription	Muscle Satellite Cultured Cells	--
17	chr2:114734000-114738000	Enhancers	Pancreas	Pancrea
18	chr2:114734000-114746000	Weak transcription	Aorta	Aorta
19	chr2:114734000-114751800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
20	chr2:114734200-114736800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr2:114734200-114737000	Enhancers	Breast Myoepithelial Primary Cells	Breast
22	chr2:114734200-114737800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr2:114734400-114736600	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr2:114734400-114749800	Weak transcription	Primary T cells fromperipheralblood	blood
25	chr2:114734600-114736600	Enhancers	Fetal Intestine Large	intestine
26	chr2:114734600-114736600	Enhancers	NH-A	brain
27	chr2:114734600-114736800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
28	chr2:114734600-114738200	Weak transcription	Stomach Smooth Muscle	stomach
29	chr2:114734800-114736600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr2:114734800-114741800	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr2:114734800-114742400	Weak transcription	Primary B cells from cord blood	blood
32	chr2:114734800-114744000	Weak transcription	Primary T cells from cord blood	blood
33	chr2:114735000-114736800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
34	chr2:114735000-114736800	Enhancers	Fetal Intestine Small	intestine
35	chr2:114735000-114737400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
36	chr2:114735200-114736600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
37	chr2:114735200-114736600	Enhancers	Rectal Mucosa Donor 31	rectum
38	chr2:114735200-114736800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
39	chr2:114735200-114737200	Weak transcription	Thymus	Thymus
40	chr2:114735200-114737400	Strong transcription	Primary neutrophils fromperipheralblood	blood
41	chr2:114735400-114736800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
42	chr2:114736000-114737200	Flanking Active TSS	HepG2	liver
43	chr2:114736000-114737600	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
44	chr2:114736000-114737600	Weak transcription	Osteobl	bone
45	chr2:114736000-114737800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
46	chr2:114736000-114738200	Weak transcription	NHDF-Ad	bronchial
47	chr2:114736000-114742600	Weak transcription	NHLF	lung
48	chr2:114736200-114736800	Enhancers	NHEK	skin
49	chr2:114736200-114737600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
50	chr2:114736200-114738600	Weak transcription	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links