Plant Circular RNA Database

Detail information of Os02g0714200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0714200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_016248
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 29607251-29609204  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0714200						
					
						Parent gene annotation
						
							Similar to Pyrophosphate--fructose 6-phosphate 1-phosphotransfer
ase alpha subunit (EC 2.7.1.90) (PFP) (6-phosphofructokinase, py
rophosphate dependent) (Pyrophosphate-dependent 6-phosphofructos
e-1-kinase) (PPi-PFK). (Os02t0714200-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0714200_circ_g.1 Os02g0714200_circ_g.2 Os02g0714200_circ_g.4 Os02g0714200_circ_g.5 Os02g0714200_circ_g.6 Os02g0714200_circ_g.7 						
					
						Support reads
						1
					
						Tissues
						root
					
						Exon boundary  
						
							Yes-Yes							"Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.

						Splicing signals  
						
							CT-AC							The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.

						Number of exons covered
						Os02t0714200-01:6

General Information
CircRNA Name	Os02g0714200_circ_g.3
ID in PlantcircBase	osa_circ_016248
Alias	NA
Organism	Oryza sativa
Position	chr2: 29607251-29609204 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0714200
Parent gene annotation	Similar to Pyrophosphate--fructose 6-phosphate 1-phosphotransfer ase alpha subunit (EC 2.7.1.90) (PFP) (6-phosphofructokinase, py rophosphate dependent) (Pyrophosphate-dependent 6-phosphofructos e-1-kinase) (PPi-PFK). (Os02t0714200-01)
Parent gene strand	-
Alternative splicing	Os02g0714200_circ_g.1 Os02g0714200_circ_g.2 Os02g0714200_circ_g.4 Os02g0714200_circ_g.5 Os02g0714200_circ_g.6 Os02g0714200_circ_g.7
Support reads	1
Tissues	root
Exon boundary	Yes-Yes "Exon boundary" shows whether the splicing sites are on the boundary of exons or not. For example, "Yes-No" represents the donor splicing site is on the exon boundary and the accepter is not on the exon boundary.
Splicing signals	CT-AC The splicing signals of the circRNA. For example, "AG-GT" represents that the donor and the accepter splicing signal is "AG" and "GT", respectively.
Number of exons covered	Os02t0714200-01:6

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							NA							Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".

						PCR primers for BSS   
						
							NA							PCR primers used in back-splicing site (BSS) validation.

						Sanger sequencing for FL   
						
							NA							Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.

						PCR primers for FL   
						
							NA							 PCR primers used in full-length (FL) sequence validation.

Experimental Information
Sanger sequencing for BSS	NA Sanger sequencing for back-splicing site (BSS) validation. "Yes" represents Sanger sequencing has been performed to valid the back-splicing site, "No" represents the opposite, "NA" represents "not available".
PCR primers for BSS	NA PCR primers used in back-splicing site (BSS) validation.
Sanger sequencing for FL	NA Sanger sequencing for full-length (FL) sequence validation of circRNAs. "Yes" represents Sanger sequencing has been performed to valid the full-length of circRNA, "No" represents the opposite.
PCR primers for FL	NA PCR primers used in full-length (FL) sequence validation.

			
				
						 Sequences
					

				
						Splice junction sequence  
						
							GCTGCCCGTATGTGTGGGGGAACGCGTGGCTGATCACATGAGCGCCTGCAGGATCAGCAGCAAT
TGCAGCGTCACCATACTCCACTCTCACAGTGGTGCCcttctcagccgaaagagcatcggtgcat
acattgcttataagttgtgagttcacctgttataataataaataagttcaacaataaataaaaa
ttgcaaag

									
								

					

						Assembled circRNA sequence  
						
							NA
The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).

					

						Full-length trsnacripts
						
							NA						
					

						Genomic sequence
						
							CTTCTCAGCCGAAAGAGCATCGGTGCATACATTGCTTATAAGTTGTGAGTTCACCTGTTATAAT
AATAAATAAGTTCAACAATAAATAAAAATTGCAAAGTGGTAAATTAAATGCGTAGTATTTTTGA
ATGGGCAACTTGGAAAGTTATCCATAGCACAAAAAACACACTTTCGCATACATAAACAACCTCA
ATTGACAAAACCAAACATGCCTAACAGGTCAGTTATGCATCATATAGAGGTAATGGAAGGACAG
TAAAGGTAAATGGAGCCCCAGCATAGTAATGTAAAGCTACCTTGCATATGGTATCAAAACCAAC
GGTTGTCTCAACAAACTGATTCTTAAGGTCCCCATTCAAAGTTACAGGAACACCTACAACCTGT
TCAATAATAAATTGTGTCATGCCATTTACAGGCAAGTAAAACATACACTTGCAATGGAAATAGG
GAATCAGGAACCAAGGCACGGACTGCAACAAGAAAAGGGAATTATGATATACCTTCGTTGCACA
CTTAGCCTCAGCAAAAGTCTCAGCAAGTTGAGCAGCATCCGTATTGGATGTAACACCTTCAGAA
ACCAGAAATTAAACAGATGTTAGGATTAAAAAAAATATACACAATGTAGCTATTTAGTAGACTA
ATGCCACAAAGCCTACCTCCAATGATTACTAAAGCATCCAACTTCAAAGCCTGACAACTAGCCA
TGGCACCATTGACCTGCTCTGTTGTTCTAATTTGATCCTTTGTCCGGCCAAGCATATCATAACC
ACCTTGGTTTTTATATGAAGAAAGAACTTCGTCGGTGATCTCCAAAGTTTTCTGTGCGAGAAGA
CCATCACTTCCACCTGTTTCAACAAAAGAACGAAATAAACACAAACATAAGAAACAGTTAAAGA
AAATCTGTAAGCATTAGCTCCAAGTGTTAGACATGTTCAGAAAAGCAGGCATGAGAGACAGAAG
CCCGCCTTGGGGGGATTCATGCACAGGATGCCAATCACAAAATTAACACATTTGATTTGGATTA
GACACTTAAGAAAGATAGGTACTCTGTCCAAGATCTTGTAGCAAAGCATCACTGATTGTTTTTT
TTTTTTTAGTATAGGTATGTCACTGTGTTGTTAATTTCATTAAGTGGACCTAGCAAAGTTCGGT
TGAAGAGCTTTAGATGTCACTACTTATGTGACAAAAATACTAAATGATGTATTGATGCTATACA
GTTGTGATCACCTGCTAAGGTAATGAAAACAAATAAAATATAACAAAAATGCTGAGTTAATTCA
AATTAAAACACTGGTGGCTGCTAGGGGAAGTCGACAACACATAGTGTGCTAAGTAGCTTGTGAA
GCTATTTAAGCAAACGCTGAAAGTCTGATTGGACGCAACAAGCAGACATGAGAACAAAGGGAAC
GAACTATTAATACATTCATAGTTGCATATCAAAGGACTCACCAAGAAAACCAATAAGTTTGCTG
TTTGGGTTGTGAGCCTTAATTGCCTCATGGAGTCCCCAGATGACATTATGGCCTCCCGGGGACT
GCCTTCCGCAGAAAACAACACCAACCCTGCATCCAAAACAAAACAATCAGATGTCTTATATGTG
CAGGCAGTGAGAGGCGAAGACAAATAATTTGATGTAATTTCTCTCCAGCATTCTCTTATAATTT
GACAAATACTTTACTACTAGTATTTGGTTTCTTTTTTTCAAAACAGTTTCTTGTCTTGCAGCAG
ATGGCATATCAAGTAAAAAAATTGAATATCACAAGTAAAAAATACATATATACCTGACAACAGG
ATGCTCTGATATGACAGTAGCATCGGGGACATTAGCCGTCTTCCGGAGAAAATGGGCCAGGGGC
TGCCCGTATGTGTGGGGGAACGCGTGGCTGATCACATGAGCGCCTGCAGGATCAGCAGCAATTG
CAGCGTCACCATACTCCACTCTCACAGTGGTGCC
						
					

			
		

Sequences
Splice junction sequence	GCTGCCCGTATGTGTGGGGGAACGCGTGGCTGATCACATGAGCGCCTGCAGGATCAGCAGCAAT TGCAGCGTCACCATACTCCACTCTCACAGTGGTGCCcttctcagccgaaagagcatcggtgcat acattgcttataagttgtgagttcacctgttataataataaataagttcaacaataaataaaaa ttgcaaag
Assembled circRNA sequence	NA The sequence of a circRNA based on assembly using circseq-cup (Ye et al., 2016) or CIRI-full (Zheng and Zhao, 2018) or CIRCexplorer2 (Zhang et al., 2016).
Full-length trsnacripts	NA
Genomic sequence	CTTCTCAGCCGAAAGAGCATCGGTGCATACATTGCTTATAAGTTGTGAGTTCACCTGTTATAAT AATAAATAAGTTCAACAATAAATAAAAATTGCAAAGTGGTAAATTAAATGCGTAGTATTTTTGA ATGGGCAACTTGGAAAGTTATCCATAGCACAAAAAACACACTTTCGCATACATAAACAACCTCA ATTGACAAAACCAAACATGCCTAACAGGTCAGTTATGCATCATATAGAGGTAATGGAAGGACAG TAAAGGTAAATGGAGCCCCAGCATAGTAATGTAAAGCTACCTTGCATATGGTATCAAAACCAAC GGTTGTCTCAACAAACTGATTCTTAAGGTCCCCATTCAAAGTTACAGGAACACCTACAACCTGT TCAATAATAAATTGTGTCATGCCATTTACAGGCAAGTAAAACATACACTTGCAATGGAAATAGG GAATCAGGAACCAAGGCACGGACTGCAACAAGAAAAGGGAATTATGATATACCTTCGTTGCACA CTTAGCCTCAGCAAAAGTCTCAGCAAGTTGAGCAGCATCCGTATTGGATGTAACACCTTCAGAA ACCAGAAATTAAACAGATGTTAGGATTAAAAAAAATATACACAATGTAGCTATTTAGTAGACTA ATGCCACAAAGCCTACCTCCAATGATTACTAAAGCATCCAACTTCAAAGCCTGACAACTAGCCA TGGCACCATTGACCTGCTCTGTTGTTCTAATTTGATCCTTTGTCCGGCCAAGCATATCATAACC ACCTTGGTTTTTATATGAAGAAAGAACTTCGTCGGTGATCTCCAAAGTTTTCTGTGCGAGAAGA CCATCACTTCCACCTGTTTCAACAAAAGAACGAAATAAACACAAACATAAGAAACAGTTAAAGA AAATCTGTAAGCATTAGCTCCAAGTGTTAGACATGTTCAGAAAAGCAGGCATGAGAGACAGAAG CCCGCCTTGGGGGGATTCATGCACAGGATGCCAATCACAAAATTAACACATTTGATTTGGATTA GACACTTAAGAAAGATAGGTACTCTGTCCAAGATCTTGTAGCAAAGCATCACTGATTGTTTTTT TTTTTTTAGTATAGGTATGTCACTGTGTTGTTAATTTCATTAAGTGGACCTAGCAAAGTTCGGT TGAAGAGCTTTAGATGTCACTACTTATGTGACAAAAATACTAAATGATGTATTGATGCTATACA GTTGTGATCACCTGCTAAGGTAATGAAAACAAATAAAATATAACAAAAATGCTGAGTTAATTCA AATTAAAACACTGGTGGCTGCTAGGGGAAGTCGACAACACATAGTGTGCTAAGTAGCTTGTGAA GCTATTTAAGCAAACGCTGAAAGTCTGATTGGACGCAACAAGCAGACATGAGAACAAAGGGAAC GAACTATTAATACATTCATAGTTGCATATCAAAGGACTCACCAAGAAAACCAATAAGTTTGCTG TTTGGGTTGTGAGCCTTAATTGCCTCATGGAGTCCCCAGATGACATTATGGCCTCCCGGGGACT GCCTTCCGCAGAAAACAACACCAACCCTGCATCCAAAACAAAACAATCAGATGTCTTATATGTG CAGGCAGTGAGAGGCGAAGACAAATAATTTGATGTAATTTCTCTCCAGCATTCTCTTATAATTT GACAAATACTTTACTACTAGTATTTGGTTTCTTTTTTTCAAAACAGTTTCTTGTCTTGCAGCAG ATGGCATATCAAGTAAAAAAATTGAATATCACAAGTAAAAAATACATATATACCTGACAACAGG ATGCTCTGATATGACAGTAGCATCGGGGACATTAGCCGTCTTCCGGAGAAAATGGGCCAGGGGC TGCCCGTATGTGTGGGGGAACGCGTGGCTGATCACATGAGCGCCTGCAGGATCAGCAGCAATTG CAGCGTCACCATACTCCACTCTCACAGTGGTGCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.138701795

Conservation Information
Conserved circRNAs	NA
PMCS	0.138701795

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29609095-29607295(+)
29608011-29607253(-)
						
						Potential amino acid sequence
						
							MGQGLPVCVGERVADHMSACRISSNCSVTILHSHSGALLSRKSIGAYIAYKL*(+)
MLGRTKDQIRTTEQVNGAMASCQALKLDALVIIGGVTSNTDAAQLAETFAEAKCATKVVGVPVT
LNGDLKNQFVETTVGFDTICKVNSQLISNVCTDALSAEKGTTVRVEYGDAAIAADPAGAHVISH
AFPHTYGQPLAHFLRKTANVPDATVISEHPVVRVGVVFCGRQSPGGHNVIWGLHEAIKAHNPNS
KLIGFLGGSDGLLAQKTLEITDEVLSSYKNQGGYDMLGRTKDQIRTTEQVNGAMASCQALKLDA
LVIIGGVTSNTDAAQLAETFAEAKCATKVVGVPVTLNGDLKNQFVETTVGFDTICKVNSQLISN
VCTDALSAEKGTTVRVEYGDAAIAADPAGAHVISHAFPHTYGQPLAHFLRKTANVPDATVISEH
PVVRVGVVFCGRQSPGGHNVIWGLHEAIKAHNPNSKLIGFLGGSDGLLAQKTLEITDEVLSSYK
NQGGYDMLGRTKDQIRTTEQVNGAMASCQALKLDALVIIGGVTSNTDAAQLAETFAEAKCATKV
VGVPVTLNGDLKNQFVETTVGFDTICKVNSQLISNVCTDALSAEKGTTVRVEYGDAAIAADPAG
AHVISHAFPHTYGQPLAHFLRKTANVPDATVISEHPVVRVGVVFCGRQSPGGHNVIWGLHEAIK
AHNPNSKLIGFLGGSDGLLAQKTLEITDEVLSSYKNQGGYDMLGRTKDQIRTTEQVNGAMASCQ
ALKLDALVIIGGVTSNTDAAQLAETFAEAKCATKVVGVPVTLNGDLKNQFVETTVGFDTICKVN
SQLISNVCTDALSAEK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29609095-29607295(+) 29608011-29607253(-)
Potential amino acid sequence	MGQGLPVCVGERVADHMSACRISSNCSVTILHSHSGALLSRKSIGAYIAYKL*(+) MLGRTKDQIRTTEQVNGAMASCQALKLDALVIIGGVTSNTDAAQLAETFAEAKCATKVVGVPVT LNGDLKNQFVETTVGFDTICKVNSQLISNVCTDALSAEKGTTVRVEYGDAAIAADPAGAHVISH AFPHTYGQPLAHFLRKTANVPDATVISEHPVVRVGVVFCGRQSPGGHNVIWGLHEAIKAHNPNS KLIGFLGGSDGLLAQKTLEITDEVLSSYKNQGGYDMLGRTKDQIRTTEQVNGAMASCQALKLDA LVIIGGVTSNTDAAQLAETFAEAKCATKVVGVPVTLNGDLKNQFVETTVGFDTICKVNSQLISN VCTDALSAEKGTTVRVEYGDAAIAADPAGAHVISHAFPHTYGQPLAHFLRKTANVPDATVISEH PVVRVGVVFCGRQSPGGHNVIWGLHEAIKAHNPNSKLIGFLGGSDGLLAQKTLEITDEVLSSYK NQGGYDMLGRTKDQIRTTEQVNGAMASCQALKLDALVIIGGVTSNTDAAQLAETFAEAKCATKV VGVPVTLNGDLKNQFVETTVGFDTICKVNSQLISNVCTDALSAEKGTTVRVEYGDAAIAADPAG AHVISHAFPHTYGQPLAHFLRKTANVPDATVISEHPVVRVGVVFCGRQSPGGHNVIWGLHEAIK AHNPNSKLIGFLGGSDGLLAQKTLEITDEVLSSYKNQGGYDMLGRTKDQIRTTEQVNGAMASCQ ALKLDALVIIGGVTSNTDAAQLAETFAEAKCATKVVGVPVTLNGDLKNQFVETTVGFDTICKVN SQLISNVCTDALSAEK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0714200_circ_g.3

Address

Any questions?

Supported by