Plant Circular RNA Database

Detail information of Os07g0134800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0134800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_032708
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 1863312-1864905  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0134800						
					
						Parent gene annotation
						
							Similar to Succinate dehydrogenase [ubiquinone] flavoprotein sub
unit, mitochondrial (EC 1.3.5.1) (FP) (Flavoprotein subunit of c
omplex II). (Os07t0134800-01);Similar to Succinate dehydrogenase
. (Os07t0134800-04)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0134800_circ_g.2 Os07g0134800_circ_g.3 Os07g0134800_circ_g.4 						
					
						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
						Os07t0134800-01:5
Os07t0134800-04:2

General Information
CircRNA Name	Os07g0134800_circ_g.1
ID in PlantcircBase	osa_circ_032708
Alias	NA
Organism	Oryza sativa
Position	chr7: 1863312-1864905 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0134800
Parent gene annotation	Similar to Succinate dehydrogenase [ubiquinone] flavoprotein sub unit, mitochondrial (EC 1.3.5.1) (FP) (Flavoprotein subunit of c omplex II). (Os07t0134800-01);Similar to Succinate dehydrogenase . (Os07t0134800-04)
Parent gene strand	-
Alternative splicing	Os07g0134800_circ_g.2 Os07g0134800_circ_g.3 Os07g0134800_circ_g.4
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	Os07t0134800-01:5 Os07t0134800-04:2

			
						 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  
						
							AAGGCAGCTTACCAAGCCAATCACTACCCTTGACAGTGTCATACATATGCCATCTCCAGTCATC
TTCCGTCATGTTTCCAAGAGCAGCATTTATGCCACCctgaagtggtaaaccagcacgtgcaacc
atagcgttgccatctccagtgcatgtgtgagctgaggttgctgagaagtaggctctgccataac
cctgtttc

									
								

					

						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
						
							CTGAAGTGGTAAACCAGCACGTGCAACCATAGCGTTGCCATCTCCAGTGCATGTGTGAGCTGAG
GTTGCTGAGAAGTAGGCTCTGCCATAACCCTGTTTCCACAAGACAACACAAAAATGAATCGCCA
TAGTCAAGAAAGCTAGCACATTTGTCATCCAAAATTCAAATCTGTGAGATATCTTACTCCTGTG
GCCAGAATTGTATTTGTAGCACGGAAACGGTGAAGAGTGCCATCCTCCATGTTCAAAGCAATAA
CCCCCTGACAGGTGCCTGAATATTATTACAAAGTAATCAATAGAGCTTCTATGGCATGGAGTAA
TCGACTGCTTGAATAAAATTCACAAGTCCTAATACAAGAAGCAGGAGGGTAAATACAAGGATAT
GAATGAGATATTTGCAACTACTGAAGAGGAAGCTACAGTGCCAAGTGTACTTGTGTTATGCTTG
AAATAGCCACACACACACACACGCACACAAGGAACAAAATAATTAGAGTAAACTGCACTTAGCA
CCGGATAAAACATTTGTTTCGCTTTGCACCAGATTTAGCACATACTTTCCTTTACACTAAGGTT
GTATTGAAATAAGTTTCACTTAGCACTAGGATACATAATCTTACCTATCAAGATTGAATAAGTT
TTATAAGATATCCTCATATTTTACAATATTTTGTTCAATTATAAGACATAACCAAGTGCAAAGT
GAAATCGAATTGAGATACCCTGGTATAAAGTGAAAGTATGTGTTAAACCCAGTGTAAAGTGAAA
CAAGTTACGCTCTACCCGGTGCAAAGTGCAATTTACTCAAATAATTATCAAAAGAAACCAATTT
AGCAATGATGGATTACAACTAGGAGTTTATGACACAGATAGTAATTAGAAAAGTCTTCTATCAT
ACACTTGAGTCTTGCATAGACTACGTAGACACAGGGTTGACGGATATGATTATCTAAAAAACTA
GCCGTCTTACCTTCACTGTCCATGATAAGGTCTAGCGCAAAATATTCTACAAAGAACTGAGTAT
TATGCTTCATTGCTTGACCATACAGAGTGTGTAACATAGCATGTCCTGTTCTGTCAGCAGCACA
TGCACATCGATAGGCCTGCCCACCTGAAGAAAGCACACACAGTTATAGGGACTGGAATAATATA
TGTCAAGATTGTCTTTTCAAAATAAATTTAGAAAGCTACGACCTTTCCCAAAATCTAAGCTCTG
GCCTCCAAAGGCCCGTTGGTATATCTTTCCATCTTCAGTTCTTGAAAATGGCAACCCATAGTTT
TCAAGTTCTATAACTGCTTTTGGTGCTTCTCTGCACATATACTGAATAGAATCCTGGTCACCTG
GAAATGGATAAGAACAAAATGTTAGAAAGAGAGTGAAACTGTAGAACAGTAGGGTAGTTGATAT
AAGATGCCATTCCATGTTAGTAACTCTTTATTATAACCTCTAGGTGTTTTGCAGCCTAAAAGAA
GTAAAAAAGGGAACCAGGAATTAAGGCAGCTTACCAAGCCAATCACTACCCTTGACAGTGTCAT
ACATATGCCATCTCCAGTCATCTTCCGTCATGTTTCCAAGAGCAGCATTTATGCCACC
						
					

			
		

Sequences
Splice junction sequence	AAGGCAGCTTACCAAGCCAATCACTACCCTTGACAGTGTCATACATATGCCATCTCCAGTCATC TTCCGTCATGTTTCCAAGAGCAGCATTTATGCCACCctgaagtggtaaaccagcacgtgcaacc atagcgttgccatctccagtgcatgtgtgagctgaggttgctgagaagtaggctctgccataac cctgtttc
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	CTGAAGTGGTAAACCAGCACGTGCAACCATAGCGTTGCCATCTCCAGTGCATGTGTGAGCTGAG GTTGCTGAGAAGTAGGCTCTGCCATAACCCTGTTTCCACAAGACAACACAAAAATGAATCGCCA TAGTCAAGAAAGCTAGCACATTTGTCATCCAAAATTCAAATCTGTGAGATATCTTACTCCTGTG GCCAGAATTGTATTTGTAGCACGGAAACGGTGAAGAGTGCCATCCTCCATGTTCAAAGCAATAA CCCCCTGACAGGTGCCTGAATATTATTACAAAGTAATCAATAGAGCTTCTATGGCATGGAGTAA TCGACTGCTTGAATAAAATTCACAAGTCCTAATACAAGAAGCAGGAGGGTAAATACAAGGATAT GAATGAGATATTTGCAACTACTGAAGAGGAAGCTACAGTGCCAAGTGTACTTGTGTTATGCTTG AAATAGCCACACACACACACACGCACACAAGGAACAAAATAATTAGAGTAAACTGCACTTAGCA CCGGATAAAACATTTGTTTCGCTTTGCACCAGATTTAGCACATACTTTCCTTTACACTAAGGTT GTATTGAAATAAGTTTCACTTAGCACTAGGATACATAATCTTACCTATCAAGATTGAATAAGTT TTATAAGATATCCTCATATTTTACAATATTTTGTTCAATTATAAGACATAACCAAGTGCAAAGT GAAATCGAATTGAGATACCCTGGTATAAAGTGAAAGTATGTGTTAAACCCAGTGTAAAGTGAAA CAAGTTACGCTCTACCCGGTGCAAAGTGCAATTTACTCAAATAATTATCAAAAGAAACCAATTT AGCAATGATGGATTACAACTAGGAGTTTATGACACAGATAGTAATTAGAAAAGTCTTCTATCAT ACACTTGAGTCTTGCATAGACTACGTAGACACAGGGTTGACGGATATGATTATCTAAAAAACTA GCCGTCTTACCTTCACTGTCCATGATAAGGTCTAGCGCAAAATATTCTACAAAGAACTGAGTAT TATGCTTCATTGCTTGACCATACAGAGTGTGTAACATAGCATGTCCTGTTCTGTCAGCAGCACA TGCACATCGATAGGCCTGCCCACCTGAAGAAAGCACACACAGTTATAGGGACTGGAATAATATA TGTCAAGATTGTCTTTTCAAAATAAATTTAGAAAGCTACGACCTTTCCCAAAATCTAAGCTCTG GCCTCCAAAGGCCCGTTGGTATATCTTTCCATCTTCAGTTCTTGAAAATGGCAACCCATAGTTT TCAAGTTCTATAACTGCTTTTGGTGCTTCTCTGCACATATACTGAATAGAATCCTGGTCACCTG GAAATGGATAAGAACAAAATGTTAGAAAGAGAGTGAAACTGTAGAACAGTAGGGTAGTTGATAT AAGATGCCATTCCATGTTAGTAACTCTTTATTATAACCTCTAGGTGTTTTGCAGCCTAAAAGAA GTAAAAAAGGGAACCAGGAATTAAGGCAGCTTACCAAGCCAATCACTACCCTTGACAGTGTCAT ACATATGCCATCTCCAGTCATCTTCCGTCATGTTTCCAAGAGCAGCATTTATGCCACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.168521335

Conservation Information
Conserved circRNAs	NA
PMCS	0.168521335

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1864853-1863320(+)
1864880-1863314(-)
1863548-1864898(-)
1863365-1864867(-)
						
						Potential amino acid sequence
						
							MPSPVIFRHVSKSSIYATLKW*(+)
MTEDDWRWHMYDTVKGSDWLGDQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQS
LDFGKGGQAYRCACAADRTGHAMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNME
DGTLHRFRATNTILATGGYGRAYFSATSAHTCTGDGNAMVARAGLPLQGGINAALGNMTEDDWR
WHMYDTVKGSDWLGDQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQSLDFGKGG
QAYRCACAADRTGHAMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNMEDGTLHRF
RATNTILATGGYGRAYFSATSAHTCTGDGNAMVARAGLPLQGGINAALGNMTEDDWRWHMYDTV
KGSDWLGDQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQSLDFGKGGQAYRCAC
AADRTGHAMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNMEDGTLHRFRATNTIL
ATGGYGRAYFSATSAHTCTGDGNAMVARAGLPLQGGINAALGNMTEDDWRWHMYDTVKGSDWLG
DQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQSLDFGKGGQAYRCACAADRTGH
AMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNMEDGTLHRFRATNTILATGGYGR
AYFSATSAHTCTGDGNAMVARAGLPLQ(-)
MALFTVSVLQIQFWPQEVMAEPTSQQPQLTHALEMATLWLHVLVYHFRVA*(-)
MHWRWQRYGCTCWFTTSGWHKCCSWKHDGR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1864853-1863320(+) 1864880-1863314(-) 1863548-1864898(-) 1863365-1864867(-)
Potential amino acid sequence	MPSPVIFRHVSKSSIYATLKW(+) MTEDDWRWHMYDTVKGSDWLGDQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQS LDFGKGGQAYRCACAADRTGHAMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNME DGTLHRFRATNTILATGGYGRAYFSATSAHTCTGDGNAMVARAGLPLQGGINAALGNMTEDDWR WHMYDTVKGSDWLGDQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQSLDFGKGG QAYRCACAADRTGHAMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNMEDGTLHRF RATNTILATGGYGRAYFSATSAHTCTGDGNAMVARAGLPLQGGINAALGNMTEDDWRWHMYDTV KGSDWLGDQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQSLDFGKGGQAYRCAC AADRTGHAMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNMEDGTLHRFRATNTIL ATGGYGRAYFSATSAHTCTGDGNAMVARAGLPLQGGINAALGNMTEDDWRWHMYDTVKGSDWLG DQDSIQYMCREAPKAVIELENYGLPFSRTEDGKIYQRAFGGQSLDFGKGGQAYRCACAADRTGH AMLHTLYGQAMKHNTQFFVEYFALDLIMDSEGTCQGVIALNMEDGTLHRFRATNTILATGGYGR AYFSATSAHTCTGDGNAMVARAGLPLQ(-) MALFTVSVLQIQFWPQEVMAEPTSQQPQLTHALEMATLWLHVLVYHFRVA(-) MHWRWQRYGCTCWFTTSGWHKCCSWKHDGR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0134800_circ_g.1

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