Plant Circular RNA Database

Detail information of Os01g0225200_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0225200_circ_g.2
					
						ID in PlantcircBase
						osa_circ_000908
					
						Alias
						Os_ciR6577
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 6900122-6902216  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os01g0225200						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os01t0225200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0225200_circ_g.1 Os01g0225200_circ_g.3 						
					
						Support reads
						2/2
					
						Tissues
						root/shoot, 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  
						
							GT-AG							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
						Os01t0225200-01:2

General Information
CircRNA Name	Os01g0225200_circ_g.2
ID in PlantcircBase	osa_circ_000908
Alias	Os_ciR6577
Organism	Oryza sativa
Position	chr1: 6900122-6902216 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os01g0225200
Parent gene annotation	Similar to predicted protein. (Os01t0225200-01)
Parent gene strand	+
Alternative splicing	Os01g0225200_circ_g.1 Os01g0225200_circ_g.3
Support reads	2/2
Tissues	root/shoot, 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	GT-AG 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	Os01t0225200-01:2

			
						 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  
						
							GGGTAGGGGGCGGATTGCTGTCATGCGCCAGGTTATAGATACTTATGAGAAATGGTGTTTAAGG
TTGTCGACCTCACGGCTGAACCGTTGGTTGCGTAAGgtggacactgcaggttggatggaaaggt
caggaaaggagaaaggtccagcatcgttgagcgtggtgcagtcaagaaagaatctgatgagagc
tcatattg

									
								

					

						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: 1391
Transcript exons: 6900122-6901374,6902079-6902216
GTGGACACTGCAGGTTGGATGGAAAGGTCAGGAAAGGAGAAAGGTCCAGCATCGTTGAGCGTGG
TGCAGTCAAGAAAGAATCTGATGAGAGCTCATATTGTAGCTCTTGTTCTGGATGGAGAAAAGGT
ACTTAATTTCATCCTGATGTGCTCTGAGCCAATGACCTGCATATTTCTTACTATGCTTCTTTCT
ATATGGTTAAGGGATAACATTTTCAATGCTCCCCTGTTCTGTAGTTTGTGTCTTTTTTTTTTCA
TAACGAAGAACTCCAAGTGAATATCTTTTACTACGGGTTTCTGGTGCCATGTTATTAATGTGGC
ATATATTCATGCCCCTTTGGAATGTGGAAAAAAAAAATCCTGATTTGCACTTGAGCAGGGCGTG
CTATTCAACATTTCAACCTCTCAAGCCATGATTTGCTAATGGAGGCATCACTACATGTGTATGA
CTTTTGTCTGAATATTTGAGGGAATAAACAATAACTCAATTGATTGTGGTGTTCTTCTTTACCA
ATTGCATTTGCTAGATCACCTGGGTTATCTGCTCTTTAACCTTGATATGCATAAGTTCTATGTC
AACTTGCCAAGTACAAAGAGTCAGACAGAGGATGAACAACCTCATCAAGCATGTTAACGTTGTT
TATGTACTCTGCTAGAAACTAAGTTGCATTAGTCATGGGGCTGCACTACTAAAGTGCTAGTATT
GGATGTGTTGGTGGTTGTAAATCATAGTTGATGTGCTTTTCACATTTATGGCGAGTGCCACCAC
CTTTTTATGTAAAATACATGTGAAATTTGGTCCAGTGCCAGTAATATTTTGTACAGTCATTTAT
TTTGTAACAATCGCCTCCTCAATACTATTACTTCTTAACCGTAGTTCTGTTTAATGTACTGAAT
TTAGTTTTTGTAAGCTTGATGTTGTAATGTCAGTCCTATTTCAAACTAGTAAGCATCAGAAGCA
TCATAGTCAATGTTTAAATTGAATATACCAGTCTGATACTTTGCATGTCTATGCATTTGCTGTC
ATTTGATTTTTAACGGCCAATGCCATAACAAATCTTTATTAATTTGTAGATTGCAAAGTCTAAA
AGTAGCATGAATCACCCTGAAGTTCTGATAGCACGGCAAGCAATAGAAGAAGGTCGTGGACTTG
TTGTGATTGTCAACAAAATGGATCTTCTTAGGGAAAACCGACCATTGTTTGACAAAGTGATAGA
TGCTGTTCCTAAAGAAATCCAGACAGTTATTCCCCAGGTTACAGGAATACCAGTTGTGTTTATG
TCTGCATTGGAGGGTAGGGGGCGGATTGCTGTCATGCGCCAGGTTATAGATACTTATGAGAAAT
GGTGTTTAAGGTTGTCGACCTCACGGCTGAACCGTTGGTTGCGTAAG
						
					

						Genomic sequence
						
							GTGGACACTGCAGGTTGGATGGAAAGGTCAGGAAAGGAGAAAGGTCCAGCATCGTTGAGCGTGG
TGCAGTCAAGAAAGAATCTGATGAGAGCTCATATTGTAGCTCTTGTTCTGGATGGAGAAAAGGT
ACTTAATTTCATCCTGATGTGCTCTGAGCCAATGACCTGCATATTTCTTACTATGCTTCTTTCT
ATATGGTTAAGGGATAACATTTTCAATGCTCCCCTGTTCTGTAGTTTGTGTCTTTTTTTTTTCA
TAACGAAGAACTCCAAGTGAATATCTTTTACTACGGGTTTCTGGTGCCATGTTATTAATGTGGC
ATATATTCATGCCCCTTTGGAATGTGGAAAAAAAAAATCCTGATTTGCACTTGAGCAGGGCGTG
CTATTCAACATTTCAACCTCTCAAGCCATGATTTGCTAATGGAGGCATCACTACATGTGTATGA
CTTTTGTCTGAATATTTGAGGGAATAAACAATAACTCAATTGATTGTGGTGTTCTTCTTTACCA
ATTGCATTTGCTAGATCACCTGGGTTATCTGCTCTTTAACCTTGATATGCATAAGTTCTATGTC
AACTTGCCAAGTACAAAGAGTCAGACAGAGGATGAACAACCTCATCAAGCATGTTAACGTTGTT
TATGTACTCTGCTAGAAACTAAGTTGCATTAGTCATGGGGCTGCACTACTAAAGTGCTAGTATT
GGATGTGTTGGTGGTTGTAAATCATAGTTGATGTGCTTTTCACATTTATGGCGAGTGCCACCAC
CTTTTTATGTAAAATACATGTGAAATTTGGTCCAGTGCCAGTAATATTTTGTACAGTCATTTAT
TTTGTAACAATCGCCTCCTCAATACTATTACTTCTTAACCGTAGTTCTGTTTAATGTACTGAAT
TTAGTTTTTGTAAGCTTGATGTTGTAATGTCAGTCCTATTTCAAACTAGTAAGCATCAGAAGCA
TCATAGTCAATGTTTAAATTGAATATACCAGTCTGATACTTTGCATGTCTATGCATTTGCTGTC
ATTTGATTTTTAACGGCCAATGCCATAACAAATCTTTATTAATTTGTAGATTGCAAAGTCTAAA
AGTAGCATGAATCACCCTGAAGTTCTGATAGCACGGCAAGCAATAGAAGAAGGTCGTGGACTTG
TTGTGATTGTCAACAAAATGGATCTTCTTAGGGAAAACCGACCATTGTTTGACAAAGTGATAGA
TGCTGTTCCTAAAGAAATCCAGACAGTTATTCCCCAGGTTTGCTTTCTTGTTGTACTAACCTAC
AACCTTGACCTATATACTGCTAACATGATTGCACAGACACTGGAAACTTTTGTGTAATTTCTGC
TAAGTATTATCTAATTATCTTGGAGACTTTCATTTCCAATTGATTCTGGGAAAGCTTTCTGATT
ATTTGTTCTTTAGTTGAAACCTTGCCAAGTTTATAATCAGTTTTTTCAGCAACAAGCTTGATGT
TTTATTATCAGTTTAGTGCTTTCTGAGTATTACTCATGTAGATGCTTTACTTTGTTTGCCGATG
GAGTACGAGAAATGGAAGATTGAAGTTTCTTTGTTTTGGTTGTTATTGCACATGGAGATGTCTT
GCTCTGTCTACTGACGGAATGTAGATATTGAGATTCATTTTGATGGATCTTCCATGTTCTTGAT
TGACAAACCATGATTTCTTTAGTGTCTGCTAATGGCTGGAAATGTGCAATCTAATCTCTGGCTT
ATTTTTTTGACCTTTCCAGAGCACGTTGCATATCTATTAATGATTTAGTGTAGTAATATCATTA
TGAAATATGAAGTGTTGCTTTTCCAGTGCATTTCGTATAACTTTTGATTCACTAAAAAGGGAGA
ATTACAGTGAACCATTTTACCAGAATATATCAGTAGTTTGCTTCATATTTTGACAGGGGACCAC
GTGACAAAATATACTAATCTTCTCCTATTTCTGGCAGGTTACAGGAATACCAGTTGTGTTTATG
TCTGCATTGGAGGGTAGGGGGCGGATTGCTGTCATGCGCCAGGTTATAGATACTTATGAGAAAT
GGTGTTTAAGGTTGTCGACCTCACGGCTGAACCGTTGGTTGCGTAAG
						
					

			
		

Sequences
Splice junction sequence	GGGTAGGGGGCGGATTGCTGTCATGCGCCAGGTTATAGATACTTATGAGAAATGGTGTTTAAGG TTGTCGACCTCACGGCTGAACCGTTGGTTGCGTAAGgtggacactgcaggttggatggaaaggt caggaaaggagaaaggtccagcatcgttgagcgtggtgcagtcaagaaagaatctgatgagagc tcatattg
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: 1391 Transcript exons: 6900122-6901374,6902079-6902216 GTGGACACTGCAGGTTGGATGGAAAGGTCAGGAAAGGAGAAAGGTCCAGCATCGTTGAGCGTGG TGCAGTCAAGAAAGAATCTGATGAGAGCTCATATTGTAGCTCTTGTTCTGGATGGAGAAAAGGT ACTTAATTTCATCCTGATGTGCTCTGAGCCAATGACCTGCATATTTCTTACTATGCTTCTTTCT ATATGGTTAAGGGATAACATTTTCAATGCTCCCCTGTTCTGTAGTTTGTGTCTTTTTTTTTTCA TAACGAAGAACTCCAAGTGAATATCTTTTACTACGGGTTTCTGGTGCCATGTTATTAATGTGGC ATATATTCATGCCCCTTTGGAATGTGGAAAAAAAAAATCCTGATTTGCACTTGAGCAGGGCGTG CTATTCAACATTTCAACCTCTCAAGCCATGATTTGCTAATGGAGGCATCACTACATGTGTATGA CTTTTGTCTGAATATTTGAGGGAATAAACAATAACTCAATTGATTGTGGTGTTCTTCTTTACCA ATTGCATTTGCTAGATCACCTGGGTTATCTGCTCTTTAACCTTGATATGCATAAGTTCTATGTC AACTTGCCAAGTACAAAGAGTCAGACAGAGGATGAACAACCTCATCAAGCATGTTAACGTTGTT TATGTACTCTGCTAGAAACTAAGTTGCATTAGTCATGGGGCTGCACTACTAAAGTGCTAGTATT GGATGTGTTGGTGGTTGTAAATCATAGTTGATGTGCTTTTCACATTTATGGCGAGTGCCACCAC CTTTTTATGTAAAATACATGTGAAATTTGGTCCAGTGCCAGTAATATTTTGTACAGTCATTTAT TTTGTAACAATCGCCTCCTCAATACTATTACTTCTTAACCGTAGTTCTGTTTAATGTACTGAAT TTAGTTTTTGTAAGCTTGATGTTGTAATGTCAGTCCTATTTCAAACTAGTAAGCATCAGAAGCA TCATAGTCAATGTTTAAATTGAATATACCAGTCTGATACTTTGCATGTCTATGCATTTGCTGTC ATTTGATTTTTAACGGCCAATGCCATAACAAATCTTTATTAATTTGTAGATTGCAAAGTCTAAA AGTAGCATGAATCACCCTGAAGTTCTGATAGCACGGCAAGCAATAGAAGAAGGTCGTGGACTTG TTGTGATTGTCAACAAAATGGATCTTCTTAGGGAAAACCGACCATTGTTTGACAAAGTGATAGA TGCTGTTCCTAAAGAAATCCAGACAGTTATTCCCCAGGTTACAGGAATACCAGTTGTGTTTATG TCTGCATTGGAGGGTAGGGGGCGGATTGCTGTCATGCGCCAGGTTATAGATACTTATGAGAAAT GGTGTTTAAGGTTGTCGACCTCACGGCTGAACCGTTGGTTGCGTAAG
Genomic sequence	GTGGACACTGCAGGTTGGATGGAAAGGTCAGGAAAGGAGAAAGGTCCAGCATCGTTGAGCGTGG TGCAGTCAAGAAAGAATCTGATGAGAGCTCATATTGTAGCTCTTGTTCTGGATGGAGAAAAGGT ACTTAATTTCATCCTGATGTGCTCTGAGCCAATGACCTGCATATTTCTTACTATGCTTCTTTCT ATATGGTTAAGGGATAACATTTTCAATGCTCCCCTGTTCTGTAGTTTGTGTCTTTTTTTTTTCA TAACGAAGAACTCCAAGTGAATATCTTTTACTACGGGTTTCTGGTGCCATGTTATTAATGTGGC ATATATTCATGCCCCTTTGGAATGTGGAAAAAAAAAATCCTGATTTGCACTTGAGCAGGGCGTG CTATTCAACATTTCAACCTCTCAAGCCATGATTTGCTAATGGAGGCATCACTACATGTGTATGA CTTTTGTCTGAATATTTGAGGGAATAAACAATAACTCAATTGATTGTGGTGTTCTTCTTTACCA ATTGCATTTGCTAGATCACCTGGGTTATCTGCTCTTTAACCTTGATATGCATAAGTTCTATGTC AACTTGCCAAGTACAAAGAGTCAGACAGAGGATGAACAACCTCATCAAGCATGTTAACGTTGTT TATGTACTCTGCTAGAAACTAAGTTGCATTAGTCATGGGGCTGCACTACTAAAGTGCTAGTATT GGATGTGTTGGTGGTTGTAAATCATAGTTGATGTGCTTTTCACATTTATGGCGAGTGCCACCAC CTTTTTATGTAAAATACATGTGAAATTTGGTCCAGTGCCAGTAATATTTTGTACAGTCATTTAT TTTGTAACAATCGCCTCCTCAATACTATTACTTCTTAACCGTAGTTCTGTTTAATGTACTGAAT TTAGTTTTTGTAAGCTTGATGTTGTAATGTCAGTCCTATTTCAAACTAGTAAGCATCAGAAGCA TCATAGTCAATGTTTAAATTGAATATACCAGTCTGATACTTTGCATGTCTATGCATTTGCTGTC ATTTGATTTTTAACGGCCAATGCCATAACAAATCTTTATTAATTTGTAGATTGCAAAGTCTAAA AGTAGCATGAATCACCCTGAAGTTCTGATAGCACGGCAAGCAATAGAAGAAGGTCGTGGACTTG TTGTGATTGTCAACAAAATGGATCTTCTTAGGGAAAACCGACCATTGTTTGACAAAGTGATAGA TGCTGTTCCTAAAGAAATCCAGACAGTTATTCCCCAGGTTTGCTTTCTTGTTGTACTAACCTAC AACCTTGACCTATATACTGCTAACATGATTGCACAGACACTGGAAACTTTTGTGTAATTTCTGC TAAGTATTATCTAATTATCTTGGAGACTTTCATTTCCAATTGATTCTGGGAAAGCTTTCTGATT ATTTGTTCTTTAGTTGAAACCTTGCCAAGTTTATAATCAGTTTTTTCAGCAACAAGCTTGATGT TTTATTATCAGTTTAGTGCTTTCTGAGTATTACTCATGTAGATGCTTTACTTTGTTTGCCGATG GAGTACGAGAAATGGAAGATTGAAGTTTCTTTGTTTTGGTTGTTATTGCACATGGAGATGTCTT GCTCTGTCTACTGACGGAATGTAGATATTGAGATTCATTTTGATGGATCTTCCATGTTCTTGAT TGACAAACCATGATTTCTTTAGTGTCTGCTAATGGCTGGAAATGTGCAATCTAATCTCTGGCTT ATTTTTTTGACCTTTCCAGAGCACGTTGCATATCTATTAATGATTTAGTGTAGTAATATCATTA TGAAATATGAAGTGTTGCTTTTCCAGTGCATTTCGTATAACTTTTGATTCACTAAAAAGGGAGA ATTACAGTGAACCATTTTACCAGAATATATCAGTAGTTTGCTTCATATTTTGACAGGGGACCAC GTGACAAAATATACTAATCTTCTCCTATTTCTGGCAGGTTACAGGAATACCAGTTGTGTTTATG TCTGCATTGGAGGGTAGGGGGCGGATTGCTGTCATGCGCCAGGTTATAGATACTTATGAGAAAT GGTGTTTAAGGTTGTCGACCTCACGGCTGAACCGTTGGTTGCGTAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_001905* osi_circ_011409 						
					
						PMCS
						0.219382323

Conservation Information
Conserved circRNAs	osi_circ_001905* osi_circ_011409
PMCS	0.219382323

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							6901217-6900394(+)
6900175-6902151(-)
						
						Potential amino acid sequence
						
							MNHPEVLIARQAIEEGRGLVVIVNKMDLLRENRPLFDKVIDAVPKEIQTVIPQVTGIPVVFMSA
LEGRGRIAVMRQVIDTYEKWCLRLSTSRLNRWLRKVDTAGWMERSGKEKGPASLSVVQSRKNLM
RAHIVALVLDGEKVLNFILMCSEPMTCIFLTMLLSIWLRDNIFNAPLFCSLCLFFFITKNSK*(
+)
MLDLSPFLTFPSNLQCPPYATNGSAVRSTTLNTISHKYL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	6901217-6900394(+) 6900175-6902151(-)
Potential amino acid sequence	MNHPEVLIARQAIEEGRGLVVIVNKMDLLRENRPLFDKVIDAVPKEIQTVIPQVTGIPVVFMSA LEGRGRIAVMRQVIDTYEKWCLRLSTSRLNRWLRKVDTAGWMERSGKEKGPASLSVVQSRKNLM RAHIVALVLDGEKVLNFILMCSEPMTCIFLTMLLSIWLRDNIFNAPLFCSLCLFFFITKNSK( +) MLDLSPFLTFPSNLQCPPYATNGSAVRSTTLNTISHKYL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os01g0225200_circ_g.2

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