Plant Circular RNA Database

Detail information of Os03g0253800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0253800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_018898
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 8113245-8114601  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0253800						
					
						Parent gene annotation
						
							Mitochondrial import inner membrane translocase, subunit Tim21 d
omain containing protein. (Os03t0253800-01);Conserved hypothetic
al protein. (Os03t0253800-02);Mitochondrial inner membrane trans
locase complex, subunit Tim21 domain containing protein. (Os03t0
253800-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0253800_circ_g.1 Os03g0253800_circ_g.3 						
					
						Support reads
						4
					
						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
						Os03t0253800-01:3
Os03t0253800-02:2
Os03t0253800-03:3

General Information
CircRNA Name	Os03g0253800_circ_g.2
ID in PlantcircBase	osa_circ_018898
Alias	NA
Organism	Oryza sativa
Position	chr3: 8113245-8114601 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0253800
Parent gene annotation	Mitochondrial import inner membrane translocase, subunit Tim21 d omain containing protein. (Os03t0253800-01);Conserved hypothetic al protein. (Os03t0253800-02);Mitochondrial inner membrane trans locase complex, subunit Tim21 domain containing protein. (Os03t0 253800-03)
Parent gene strand	-
Alternative splicing	Os03g0253800_circ_g.1 Os03g0253800_circ_g.3
Support reads	4
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	Os03t0253800-01:3 Os03t0253800-02:2 Os03t0253800-03:3

			
						 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  
						
							GACTGTAGGAAGCCCCTTCAGCAAATGTCACTGGCTTCTCAGGTATGTTGTAGGTAGGGGAATC
AAATGGATCTTCAACAGTTTTCAGGTCTTTTGTACCctccacatgttcaacaccgtcctcatct
gtccaaaccttgttaggaatgcgctgccgagctgcacgatttctactttcattgccatatccag
taacagga

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 1269
Transcript exons: 8113245-8113364,8113453-8114601
CTCCACATGTTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCA
CGATTTCTACTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACTGT
CATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTACCTGTAGAATGGTAACAGCAGTGC
AAGCTCTTTCAAATTGCATATAATAATATATGCATTTAACATAAGAAAAAGATTCGAAGCACAA
AAAGAACTTTCACTAGGAAGTAACAAGAACACCCATGCCAACTTGCTAAGTGACTTGCATAGGA
TCAAATCAGAAATGTGCCATGGCACTCTGCTGCAGCATACAAGAAAAAAAATCCATAGCTTACT
GATTGTTTCTTTAAAGTTTGGCACCGTAAGTGGCTACATGTGAGGGTCATAAACAAACCTAGAA
ACATCTGGATTAATAAATGTGTGTGTGATATTAGTTTTTTAAAAAATAAATAAAAAGGAACTAT
TTCCATATTATACAAAATATTAACGCTACAATGTGAAGAAAGACCATTGCACAGTGCATATTTG
TAGGACTTACCAAATTATCATAACTGGTTAGACTTGAATGTATTTTACTGTCATAAGCCATACA
ATTATGCGAGCAACTATATTATTAAAGTACCTTTGATTTCATTCAAAATGGAGGCTTCCTGAGG
AACTGGTTCATCGTGGAATCTTAAGCCATGTGAAAAATAGGAGAGGCAGGGGTTGGATAAAAAC
TGAAATGGAAGAAAGTGGTAAAAAGACCACTGAAGGCATGGAGTGCATCCAAAGATTTGGGTTT
GGATAGGAGTACGAGGAAGTTGGCGATCCAACATCCAAGTGCCAGAACTACATAAGAATTTACA
TAATTCTTTCACCGGTATCATTCCTAGTAGTATTAGGAATATGTGGAAGTTAGAGATCCAACAT
TTTGGTTCTCCTGGCTATACTTGGGTTTCACCTCTAGTCCACCCAGCTTCCTGGGACTAAAGAT
TGTAGTACTTGTTGTTGAGCTAAGTGCCTAAGTCAAAAGAATTAACAATTAATGCAGAAAACTT
ACTCTTTTGGTTCAAATATAAGTTCTTTGAAAACAGCATATCCAGCCACTGCTGCAATTCCAAG
TCCCGCAACTATTACAAGACTGTAGGAAGCCCCTTCAGCAAATGTCACTGGCTTCTCAGGTATG
TTGTAGGTAGGGGAATCAAATGGATCTTCAACAGTTTTCAGGTCTTTTGTACC
Transcript length: 348
Transcript exons: 8113245-8113364,8113453-8113501,8114423-8114601
CTCCACATGTTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCA
CGATTTCTACTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACTGT
CATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTACTCTTTTGGTTCAAATATAAGTTC
TTTGAAAACAGCATATCCAGCCACTGCTGCAATTCCAAGTCCCGCAACTATTACAAGACTGTAG
GAAGCCCCTTCAGCAAATGTCACTGGCTTCTCAGGTATGTTGTAGGTAGGGGAATCAAATGGAT
CTTCAACAGTTTTCAGGTCTTTTGTACC
						
					

						Genomic sequence
						
							CTCCACATGTTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCA
CGATTTCTACTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACAAA
ACGTGTGAAAACATGAAGTTGTACCAAGGGGAAAATATGATATGTATGAAGGAAGTGGAATAGC
ACTAATGTCCACAAACCTGACTGTCATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTA
CCTGTAGAATGGTAACAGCAGTGCAAGCTCTTTCAAATTGCATATAATAATATATGCATTTAAC
ATAAGAAAAAGATTCGAAGCACAAAAAGAACTTTCACTAGGAAGTAACAAGAACACCCATGCCA
ACTTGCTAAGTGACTTGCATAGGATCAAATCAGAAATGTGCCATGGCACTCTGCTGCAGCATAC
AAGAAAAAAAATCCATAGCTTACTGATTGTTTCTTTAAAGTTTGGCACCGTAAGTGGCTACATG
TGAGGGTCATAAACAAACCTAGAAACATCTGGATTAATAAATGTGTGTGTGATATTAGTTTTTT
AAAAAATAAATAAAAAGGAACTATTTCCATATTATACAAAATATTAACGCTACAATGTGAAGAA
AGACCATTGCACAGTGCATATTTGTAGGACTTACCAAATTATCATAACTGGTTAGACTTGAATG
TATTTTACTGTCATAAGCCATACAATTATGCGAGCAACTATATTATTAAAGTACCTTTGATTTC
ATTCAAAATGGAGGCTTCCTGAGGAACTGGTTCATCGTGGAATCTTAAGCCATGTGAAAAATAG
GAGAGGCAGGGGTTGGATAAAAACTGAAATGGAAGAAAGTGGTAAAAAGACCACTGAAGGCATG
GAGTGCATCCAAAGATTTGGGTTTGGATAGGAGTACGAGGAAGTTGGCGATCCAACATCCAAGT
GCCAGAACTACATAAGAATTTACATAATTCTTTCACCGGTATCATTCCTAGTAGTATTAGGAAT
ATGTGGAAGTTAGAGATCCAACATTTTGGTTCTCCTGGCTATACTTGGGTTTCACCTCTAGTCC
ACCCAGCTTCCTGGGACTAAAGATTGTAGTACTTGTTGTTGAGCTAAGTGCCTAAGTCAAAAGA
ATTAACAATTAATGCAGAAAACTTACTCTTTTGGTTCAAATATAAGTTCTTTGAAAACAGCATA
TCCAGCCACTGCTGCAATTCCAAGTCCCGCAACTATTACAAGACTGTAGGAAGCCCCTTCAGCA
AATGTCACTGGCTTCTCAGGTATGTTGTAGGTAGGGGAATCAAATGGATCTTCAACAGTTTTCA
GGTCTTTTGTACC
						
					

			
		

Sequences
Splice junction sequence	GACTGTAGGAAGCCCCTTCAGCAAATGTCACTGGCTTCTCAGGTATGTTGTAGGTAGGGGAATC AAATGGATCTTCAACAGTTTTCAGGTCTTTTGTACCctccacatgttcaacaccgtcctcatct gtccaaaccttgttaggaatgcgctgccgagctgcacgatttctactttcattgccatatccag taacagga
Assembled circRNA sequence	Yes 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	Transcript length: 1269 Transcript exons: 8113245-8113364,8113453-8114601 CTCCACATGTTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCA CGATTTCTACTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACTGT CATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTACCTGTAGAATGGTAACAGCAGTGC AAGCTCTTTCAAATTGCATATAATAATATATGCATTTAACATAAGAAAAAGATTCGAAGCACAA AAAGAACTTTCACTAGGAAGTAACAAGAACACCCATGCCAACTTGCTAAGTGACTTGCATAGGA TCAAATCAGAAATGTGCCATGGCACTCTGCTGCAGCATACAAGAAAAAAAATCCATAGCTTACT GATTGTTTCTTTAAAGTTTGGCACCGTAAGTGGCTACATGTGAGGGTCATAAACAAACCTAGAA ACATCTGGATTAATAAATGTGTGTGTGATATTAGTTTTTTAAAAAATAAATAAAAAGGAACTAT TTCCATATTATACAAAATATTAACGCTACAATGTGAAGAAAGACCATTGCACAGTGCATATTTG TAGGACTTACCAAATTATCATAACTGGTTAGACTTGAATGTATTTTACTGTCATAAGCCATACA ATTATGCGAGCAACTATATTATTAAAGTACCTTTGATTTCATTCAAAATGGAGGCTTCCTGAGG AACTGGTTCATCGTGGAATCTTAAGCCATGTGAAAAATAGGAGAGGCAGGGGTTGGATAAAAAC TGAAATGGAAGAAAGTGGTAAAAAGACCACTGAAGGCATGGAGTGCATCCAAAGATTTGGGTTT GGATAGGAGTACGAGGAAGTTGGCGATCCAACATCCAAGTGCCAGAACTACATAAGAATTTACA TAATTCTTTCACCGGTATCATTCCTAGTAGTATTAGGAATATGTGGAAGTTAGAGATCCAACAT TTTGGTTCTCCTGGCTATACTTGGGTTTCACCTCTAGTCCACCCAGCTTCCTGGGACTAAAGAT TGTAGTACTTGTTGTTGAGCTAAGTGCCTAAGTCAAAAGAATTAACAATTAATGCAGAAAACTT ACTCTTTTGGTTCAAATATAAGTTCTTTGAAAACAGCATATCCAGCCACTGCTGCAATTCCAAG TCCCGCAACTATTACAAGACTGTAGGAAGCCCCTTCAGCAAATGTCACTGGCTTCTCAGGTATG TTGTAGGTAGGGGAATCAAATGGATCTTCAACAGTTTTCAGGTCTTTTGTACC Transcript length: 348 Transcript exons: 8113245-8113364,8113453-8113501,8114423-8114601 CTCCACATGTTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCA CGATTTCTACTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACTGT CATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTACTCTTTTGGTTCAAATATAAGTTC TTTGAAAACAGCATATCCAGCCACTGCTGCAATTCCAAGTCCCGCAACTATTACAAGACTGTAG GAAGCCCCTTCAGCAAATGTCACTGGCTTCTCAGGTATGTTGTAGGTAGGGGAATCAAATGGAT CTTCAACAGTTTTCAGGTCTTTTGTACC
Genomic sequence	CTCCACATGTTCAACACCGTCCTCATCTGTCCAAACCTTGTTAGGAATGCGCTGCCGAGCTGCA CGATTTCTACTTTCATTGCCATATCCAGTAACAGGATACCCAATTTTTGCTGTAACCTGACAAA ACGTGTGAAAACATGAAGTTGTACCAAGGGGAAAATATGATATGTATGAAGGAAGTGGAATAGC ACTAATGTCCACAAACCTGACTGTCATTCTGTACTCTTGCTAGCGCTTTTCCAAAAATCTTGTA CCTGTAGAATGGTAACAGCAGTGCAAGCTCTTTCAAATTGCATATAATAATATATGCATTTAAC ATAAGAAAAAGATTCGAAGCACAAAAAGAACTTTCACTAGGAAGTAACAAGAACACCCATGCCA ACTTGCTAAGTGACTTGCATAGGATCAAATCAGAAATGTGCCATGGCACTCTGCTGCAGCATAC AAGAAAAAAAATCCATAGCTTACTGATTGTTTCTTTAAAGTTTGGCACCGTAAGTGGCTACATG TGAGGGTCATAAACAAACCTAGAAACATCTGGATTAATAAATGTGTGTGTGATATTAGTTTTTT AAAAAATAAATAAAAAGGAACTATTTCCATATTATACAAAATATTAACGCTACAATGTGAAGAA AGACCATTGCACAGTGCATATTTGTAGGACTTACCAAATTATCATAACTGGTTAGACTTGAATG TATTTTACTGTCATAAGCCATACAATTATGCGAGCAACTATATTATTAAAGTACCTTTGATTTC ATTCAAAATGGAGGCTTCCTGAGGAACTGGTTCATCGTGGAATCTTAAGCCATGTGAAAAATAG GAGAGGCAGGGGTTGGATAAAAACTGAAATGGAAGAAAGTGGTAAAAAGACCACTGAAGGCATG GAGTGCATCCAAAGATTTGGGTTTGGATAGGAGTACGAGGAAGTTGGCGATCCAACATCCAAGT GCCAGAACTACATAAGAATTTACATAATTCTTTCACCGGTATCATTCCTAGTAGTATTAGGAAT ATGTGGAAGTTAGAGATCCAACATTTTGGTTCTCCTGGCTATACTTGGGTTTCACCTCTAGTCC ACCCAGCTTCCTGGGACTAAAGATTGTAGTACTTGTTGTTGAGCTAAGTGCCTAAGTCAAAAGA ATTAACAATTAATGCAGAAAACTTACTCTTTTGGTTCAAATATAAGTTCTTTGAAAACAGCATA TCCAGCCACTGCTGCAATTCCAAGTCCCGCAACTATTACAAGACTGTAGGAAGCCCCTTCAGCA AATGTCACTGGCTTCTCAGGTATGTTGTAGGTAGGGGAATCAAATGGATCTTCAACAGTTTTCA GGTCTTTTGTACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014139 						
					
						PMCS
						0.247432019

Conservation Information
Conserved circRNAs	osi_circ_014139
PMCS	0.247432019

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							8114569-8113285(+)
8113568-8114421(-)
8113465-8114588(-)
						
						Potential amino acid sequence
						
							MDLQQFSGLLYPPHVQHRPHLSKPC*(+)
MLNAYIIICNLKELALLLPFYRYKIFGKALARVQNDSQVTAKIGYPVTGYGNESRNRAARQRIP
NKVWTDEDGVEHVEGTKDLKTVEDPFDSPTYNIPEKPVTFAEGASYSLVIVAGLGIAAVAGYAV
FKELIFEPKE*(-)
MTVRLQQKLGILLLDMAMKVEIVQLGSAFLTRFGQMRTVLNMWRVQKT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	8114569-8113285(+) 8113568-8114421(-) 8113465-8114588(-)
Potential amino acid sequence	MDLQQFSGLLYPPHVQHRPHLSKPC(+) MLNAYIIICNLKELALLLPFYRYKIFGKALARVQNDSQVTAKIGYPVTGYGNESRNRAARQRIP NKVWTDEDGVEHVEGTKDLKTVEDPFDSPTYNIPEKPVTFAEGASYSLVIVAGLGIAAVAGYAV FKELIFEPKE(-) MTVRLQQKLGILLLDMAMKVEIVQLGSAFLTRFGQMRTVLNMWRVQKT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0253800_circ_g.2

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