Plant Circular RNA Database

Detail information of Os12g0168000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os12g0168000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_010608
					
						Alias
						Os12circ01113
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 3434242-3435341  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os12g0168000						
					
						Parent gene annotation
						
							5-formyltetrahydrofolate cyclo-ligase family protein. (Os12t0168
000-01);Similar to 5-formyltetrahydrofolate cyclo-ligase. (Os12t
0168000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0168000_circ_g.1 						
					
						Support reads
						2/1
					
						Tissues
						leaf and panicle/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
						Os12t0168000-02:4
Os12t0168000-01:4

General Information
CircRNA Name	Os12g0168000_circ_g.2
ID in PlantcircBase	osa_circ_010608
Alias	Os12circ01113
Organism	Oryza sativa
Position	chr12: 3434242-3435341 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os12g0168000
Parent gene annotation	5-formyltetrahydrofolate cyclo-ligase family protein. (Os12t0168 000-01);Similar to 5-formyltetrahydrofolate cyclo-ligase. (Os12t 0168000-02)
Parent gene strand	+
Alternative splicing	Os12g0168000_circ_g.1
Support reads	2/1
Tissues	leaf and panicle/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	Os12t0168000-02:4 Os12t0168000-01:4

			
						 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  
						
							ATAGAGAGTGAAACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGCTACCACCAACAGCGC
AGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGAgagataaaaagttgctgactccgcaacc
tcggctaaggacaggatttttctcagttctggaatctcacatgatacccattggatgtattcca
gaagcatg

									
								

					

						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: 600
Transcript exons: 3434242-3434468,3434736-3434811,3434959-3435084,3435171-
3435341
GAGATAAAAAGTTGCTGACTCCGCAACCTCGGCTAAGGACAGGATTTTTCTCAGTTCTGGAATC
TCACATGATACCCATTGGATGTATTCCAGAAGCATGTACTTCTGTTGGTGCAGCCAAATACGGG
AGACCTATAGGTCTAGATGAAAAAATTAAAGTGGATTTGATTGTGATTGGATCGGTTGCAGTTG
ATCCAAGCACAGGAGCACGACTAGGAAAGGGCGAGGGATTTGCAGAGCTGGAATATGGGATGCT
GCGTTATATGGGATCTATAAGCGATTCAACCATGATAGTAACAACTGTGCATGACAAACAATTA
GTGAATGACATTCCAGTTGAGAAGCTGTTAGTTCATGATGTACCAGTTGACATTATCTGCACTC
CAACTCAGGTCATATTCACAAATACCACGATCGCGAAACCACAAGGGATTTACTGGGAAAAGTT
ATCTCCAGAGAAATTGGGCCAAATCCGAATTCTACAGGAGCTGAAGAGACGCATAGAGAGTGAA
ACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGCTACCACCAACAGCGCAGCGAAGAAGAA
GAAAACGAAGACGGTGATGATTGA
						
					

						Genomic sequence
						
							GAGATAAAAAGTTGCTGACTCCGCAACCTCGGCTAAGGACAGGATTTTTCTCAGTTCTGGAATC
TCACATGATACCCATTGGATGTATTCCAGAAGCATGTACTTCTGTTGGTGCAGCCAAATACGGG
AGACCTATAGGTCTAGATGAAAAAATTAAAGTGGATTTGATTGTGATTGGATCGGTTGCAGTTG
ATCCAAGCACAGGAGCACGACTAGGAAAGGGCGAGGTAACTATTCTCTGCTTGTAATTGCATTT
CTGCAGTTGAAGACTTGACGCAGAGTTTAATTTGTTTCTCTCCTGTACATTTGTATGGAAGAAA
TTAATAGAGGAAATAATGAGGTTTGACCTGCTTTCCTTCTTCCTTTGAGAGAAAAATTGAGCGA
TAGGCTTTTCACTTCTGTCCAATGTTGGCACTATGTTGAAATGTTGAATCATGCTCTATCTACT
GAAACTACTTATTCCCACTCCTTTATTTCATCAAAATGGTCTATAGGGATTTGCAGAGCTGGAA
TATGGGATGCTGCGTTATATGGGATCTATAAGCGATTCAACCATGATAGTAACAACTGGTGAGT
TTTTTTATATTGATTCAGCTGGTTATCCCTTCTTGGATAACCTTTATATATTTTTTATCAAATT
TAAATTAATTGCCTTTTAGCTCATTTGTTCCTTGATTAATAACTAATGTAAATTGCCAACTGTG
TCTATGACTGCAGTGCATGACAAACAATTAGTGAATGACATTCCAGTTGAGAAGCTGTTAGTTC
ATGATGTACCAGTTGACATTATCTGCACTCCAACTCAGGTCATATTCACAAATACCACGATCGC
GAAACCACAAGGTATGAATGATTGTATTATTTAATATTTTGGTAAACCGGCAAAAAAACCTTAT
GTGACCAGATTTTTGGGGAACTTCTGCATGCAGGGATTTACTGGGAAAAGTTATCTCCAGAGAA
ATTGGGCCAAATCCGAATTCTACAGGAGCTGAAGAGACGCATAGAGAGTGAAACAGGAACTACA
CTTCCTTGTGGCCCTTCTGAGAAGCTACCACCAACAGCGCAGCGAAGAAGAAGAAAACGAAGAC
GGTGATGATTGA
						
					

			
		

Sequences
Splice junction sequence	ATAGAGAGTGAAACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGCTACCACCAACAGCGC AGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGAgagataaaaagttgctgactccgcaacc tcggctaaggacaggatttttctcagttctggaatctcacatgatacccattggatgtattcca gaagcatg
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: 600 Transcript exons: 3434242-3434468,3434736-3434811,3434959-3435084,3435171- 3435341 GAGATAAAAAGTTGCTGACTCCGCAACCTCGGCTAAGGACAGGATTTTTCTCAGTTCTGGAATC TCACATGATACCCATTGGATGTATTCCAGAAGCATGTACTTCTGTTGGTGCAGCCAAATACGGG AGACCTATAGGTCTAGATGAAAAAATTAAAGTGGATTTGATTGTGATTGGATCGGTTGCAGTTG ATCCAAGCACAGGAGCACGACTAGGAAAGGGCGAGGGATTTGCAGAGCTGGAATATGGGATGCT GCGTTATATGGGATCTATAAGCGATTCAACCATGATAGTAACAACTGTGCATGACAAACAATTA GTGAATGACATTCCAGTTGAGAAGCTGTTAGTTCATGATGTACCAGTTGACATTATCTGCACTC CAACTCAGGTCATATTCACAAATACCACGATCGCGAAACCACAAGGGATTTACTGGGAAAAGTT ATCTCCAGAGAAATTGGGCCAAATCCGAATTCTACAGGAGCTGAAGAGACGCATAGAGAGTGAA ACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGCTACCACCAACAGCGCAGCGAAGAAGAA GAAAACGAAGACGGTGATGATTGA
Genomic sequence	GAGATAAAAAGTTGCTGACTCCGCAACCTCGGCTAAGGACAGGATTTTTCTCAGTTCTGGAATC TCACATGATACCCATTGGATGTATTCCAGAAGCATGTACTTCTGTTGGTGCAGCCAAATACGGG AGACCTATAGGTCTAGATGAAAAAATTAAAGTGGATTTGATTGTGATTGGATCGGTTGCAGTTG ATCCAAGCACAGGAGCACGACTAGGAAAGGGCGAGGTAACTATTCTCTGCTTGTAATTGCATTT CTGCAGTTGAAGACTTGACGCAGAGTTTAATTTGTTTCTCTCCTGTACATTTGTATGGAAGAAA TTAATAGAGGAAATAATGAGGTTTGACCTGCTTTCCTTCTTCCTTTGAGAGAAAAATTGAGCGA TAGGCTTTTCACTTCTGTCCAATGTTGGCACTATGTTGAAATGTTGAATCATGCTCTATCTACT GAAACTACTTATTCCCACTCCTTTATTTCATCAAAATGGTCTATAGGGATTTGCAGAGCTGGAA TATGGGATGCTGCGTTATATGGGATCTATAAGCGATTCAACCATGATAGTAACAACTGGTGAGT TTTTTTATATTGATTCAGCTGGTTATCCCTTCTTGGATAACCTTTATATATTTTTTATCAAATT TAAATTAATTGCCTTTTAGCTCATTTGTTCCTTGATTAATAACTAATGTAAATTGCCAACTGTG TCTATGACTGCAGTGCATGACAAACAATTAGTGAATGACATTCCAGTTGAGAAGCTGTTAGTTC ATGATGTACCAGTTGACATTATCTGCACTCCAACTCAGGTCATATTCACAAATACCACGATCGC GAAACCACAAGGTATGAATGATTGTATTATTTAATATTTTGGTAAACCGGCAAAAAAACCTTAT GTGACCAGATTTTTGGGGAACTTCTGCATGCAGGGATTTACTGGGAAAAGTTATCTCCAGAGAA ATTGGGCCAAATCCGAATTCTACAGGAGCTGAAGAGACGCATAGAGAGTGAAACAGGAACTACA CTTCCTTGTGGCCCTTCTGAGAAGCTACCACCAACAGCGCAGCGAAGAAGAAGAAAACGAAGAC GGTGATGATTGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010128 						
					
						PMCS
						0.255375621

Conservation Information
Conserved circRNAs	osi_circ_010128
PMCS	0.255375621

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3434342-3435263(-)
						
						Potential amino acid sequence
						
							MLLEYIQWVSCEIPELRKILSLAEVAESATFYLSIITVFVFFFFAALLVVASQKGHKEV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3434342-3435263(-)
Potential amino acid sequence	MLLEYIQWVSCEIPELRKILSLAEVAESATFYLSIITVFVFFFFAALLVVASQKGHKEV*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os12g0168000_circ_g.2

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