Plant Circular RNA Database

Detail information of Os12g0168000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0168000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010607
					
						Alias
						Os_ciR7528
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 3433250-3435341  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						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.2 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot
					
						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
						Os12t0168000-02:5
Os12t0168000-01:5

General Information
CircRNA Name	Os12g0168000_circ_g.1
ID in PlantcircBase	osa_circ_010607
Alias	Os_ciR7528
Organism	Oryza sativa
Position	chr12: 3433250-3435341 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
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.2
Support reads	2/1
Tissues	root/shoot
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	Os12t0168000-02:5 Os12t0168000-01:5

			
						 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
AGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGActggggagactcgacgtgttccaggatg
cacaatgtgtgaaggtcaatcccgactcacctcagaagcaagttcgcttcttaacactctcagg
tcagtttg

									
								

					

						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: 691
Transcript exons: 3433250-3433340,3434242-3434468,3434736-3434811,3434959-
3435084,3435171-3435341
CTGGGGAGACTCGACGTGTTCCAGGATGCACAATGTGTGAAGGTCAATCCCGACTCACCTCAGA
AGCAAGTTCGCTTCTTAACACTCTCAGGAGATAAAAAGTTGCTGACTCCGCAACCTCGGCTAAG
GACAGGATTTTTCTCAGTTCTGGAATCTCACATGATACCCATTGGATGTATTCCAGAAGCATGT
ACTTCTGTTGGTGCAGCCAAATACGGGAGACCTATAGGTCTAGATGAAAAAATTAAAGTGGATT
TGATTGTGATTGGATCGGTTGCAGTTGATCCAAGCACAGGAGCACGACTAGGAAAGGGCGAGGG
ATTTGCAGAGCTGGAATATGGGATGCTGCGTTATATGGGATCTATAAGCGATTCAACCATGATA
GTAACAACTGTGCATGACAAACAATTAGTGAATGACATTCCAGTTGAGAAGCTGTTAGTTCATG
ATGTACCAGTTGACATTATCTGCACTCCAACTCAGGTCATATTCACAAATACCACGATCGCGAA
ACCACAAGGGATTTACTGGGAAAAGTTATCTCCAGAGAAATTGGGCCAAATCCGAATTCTACAG
GAGCTGAAGAGACGCATAGAGAGTGAAACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGC
TACCACCAACAGCGCAGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGA
						
					

						Genomic sequence
						
							CTGGGGAGACTCGACGTGTTCCAGGATGCACAATGTGTGAAGGTCAATCCCGACTCACCTCAGA
AGCAAGTTCGCTTCTTAACACTCTCAGGTCAGTTTGCTGATACCTTAAGGGTGCGTTCTGGGCA
CTAAATTTTCCGATCTTCTACTCCCTTGTTTTCTGCGCGCTCACTTCCCGAACTGTTAAACAAT
ACTACGTTTTTTGCAAAAAAAATTCTATATGAAAGTTACTTTAAAAATCATATTAATCTATGTA
CTCACTTGCAAGATACTTTTATGCCGGTATCTTCAATCCTGTTACACATATATATTTTTTCTAT
TGCTCTTTTTGTTAAATTCCCTTGAGGCCTTGACACTCAAAGAGTAAGTTCTGGATTTAGGTCC
AAGAGAAGTAGAGAACATGATTTGTCAGAAGCAACAGTGCAAGAATAGTAATTCTGTCACTGAG
TCTGCTTTTGTAGTTTCGGTTAATTCCCTCATTGAGAACTTGCGTTGGTTGGCATGTGTACTCA
TAGTTTAACTTGTTTTTCCCCCTGTGTGTGTGTTCCTGAGGCTGAGGGCTTATTTGGAATTTTG
GATGGATAGGGATTAAGCTCAGGTTGGCATGGATGTTAGTACAAATGTACAATTTCCGTGCAAA
TCTGGTAGGAATTTTTCCCTTCATATCCAAACAAGCCCTGAGTGAGCTCCCGGTTGCATGTGCT
CGGTACTCCTCAGAGGGCCTTTGTGACAATTGGGCAGTGGATTTTTTTTAGTGGTTTTTTTAGC
AGTTTTCTCAAGGCTCTGTAGGTTCTTGTTTCATTTGATGAAAACCGGTGAAGACAGATCATTT
GTTGACTTTTGTGTTGCAAGACAAACCATACTGTTCTTATTAGTGCTTGATGCTTTTAAATGCC
ATTTGTTGCTTTTGAATCTGTTGCGCATCTTAATCAACTAATTATAAATCTATGATAGCCATAT
GCACTAATCAGGTTAAACTTGGATCCTCACAGGAGATAAAAAGTTGCTGACTCCGCAACCTCGG
CTAAGGACAGGATTTTTCTCAGTTCTGGAATCTCACATGATACCCATTGGATGTATTCCAGAAG
CATGTACTTCTGTTGGTGCAGCCAAATACGGGAGACCTATAGGTCTAGATGAAAAAATTAAAGT
GGATTTGATTGTGATTGGATCGGTTGCAGTTGATCCAAGCACAGGAGCACGACTAGGAAAGGGC
GAGGTAACTATTCTCTGCTTGTAATTGCATTTCTGCAGTTGAAGACTTGACGCAGAGTTTAATT
TGTTTCTCTCCTGTACATTTGTATGGAAGAAATTAATAGAGGAAATAATGAGGTTTGACCTGCT
TTCCTTCTTCCTTTGAGAGAAAAATTGAGCGATAGGCTTTTCACTTCTGTCCAATGTTGGCACT
ATGTTGAAATGTTGAATCATGCTCTATCTACTGAAACTACTTATTCCCACTCCTTTATTTCATC
AAAATGGTCTATAGGGATTTGCAGAGCTGGAATATGGGATGCTGCGTTATATGGGATCTATAAG
CGATTCAACCATGATAGTAACAACTGGTGAGTTTTTTTATATTGATTCAGCTGGTTATCCCTTC
TTGGATAACCTTTATATATTTTTTATCAAATTTAAATTAATTGCCTTTTAGCTCATTTGTTCCT
TGATTAATAACTAATGTAAATTGCCAACTGTGTCTATGACTGCAGTGCATGACAAACAATTAGT
GAATGACATTCCAGTTGAGAAGCTGTTAGTTCATGATGTACCAGTTGACATTATCTGCACTCCA
ACTCAGGTCATATTCACAAATACCACGATCGCGAAACCACAAGGTATGAATGATTGTATTATTT
AATATTTTGGTAAACCGGCAAAAAAACCTTATGTGACCAGATTTTTGGGGAACTTCTGCATGCA
GGGATTTACTGGGAAAAGTTATCTCCAGAGAAATTGGGCCAAATCCGAATTCTACAGGAGCTGA
AGAGACGCATAGAGAGTGAAACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGCTACCACC
AACAGCGCAGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGA
						
					

			
		

Sequences
Splice junction sequence	ATAGAGAGTGAAACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGCTACCACCAACAGCGC AGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGActggggagactcgacgtgttccaggatg cacaatgtgtgaaggtcaatcccgactcacctcagaagcaagttcgcttcttaacactctcagg tcagtttg
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: 691 Transcript exons: 3433250-3433340,3434242-3434468,3434736-3434811,3434959- 3435084,3435171-3435341 CTGGGGAGACTCGACGTGTTCCAGGATGCACAATGTGTGAAGGTCAATCCCGACTCACCTCAGA AGCAAGTTCGCTTCTTAACACTCTCAGGAGATAAAAAGTTGCTGACTCCGCAACCTCGGCTAAG GACAGGATTTTTCTCAGTTCTGGAATCTCACATGATACCCATTGGATGTATTCCAGAAGCATGT ACTTCTGTTGGTGCAGCCAAATACGGGAGACCTATAGGTCTAGATGAAAAAATTAAAGTGGATT TGATTGTGATTGGATCGGTTGCAGTTGATCCAAGCACAGGAGCACGACTAGGAAAGGGCGAGGG ATTTGCAGAGCTGGAATATGGGATGCTGCGTTATATGGGATCTATAAGCGATTCAACCATGATA GTAACAACTGTGCATGACAAACAATTAGTGAATGACATTCCAGTTGAGAAGCTGTTAGTTCATG ATGTACCAGTTGACATTATCTGCACTCCAACTCAGGTCATATTCACAAATACCACGATCGCGAA ACCACAAGGGATTTACTGGGAAAAGTTATCTCCAGAGAAATTGGGCCAAATCCGAATTCTACAG GAGCTGAAGAGACGCATAGAGAGTGAAACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGC TACCACCAACAGCGCAGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGA
Genomic sequence	CTGGGGAGACTCGACGTGTTCCAGGATGCACAATGTGTGAAGGTCAATCCCGACTCACCTCAGA AGCAAGTTCGCTTCTTAACACTCTCAGGTCAGTTTGCTGATACCTTAAGGGTGCGTTCTGGGCA CTAAATTTTCCGATCTTCTACTCCCTTGTTTTCTGCGCGCTCACTTCCCGAACTGTTAAACAAT ACTACGTTTTTTGCAAAAAAAATTCTATATGAAAGTTACTTTAAAAATCATATTAATCTATGTA CTCACTTGCAAGATACTTTTATGCCGGTATCTTCAATCCTGTTACACATATATATTTTTTCTAT TGCTCTTTTTGTTAAATTCCCTTGAGGCCTTGACACTCAAAGAGTAAGTTCTGGATTTAGGTCC AAGAGAAGTAGAGAACATGATTTGTCAGAAGCAACAGTGCAAGAATAGTAATTCTGTCACTGAG TCTGCTTTTGTAGTTTCGGTTAATTCCCTCATTGAGAACTTGCGTTGGTTGGCATGTGTACTCA TAGTTTAACTTGTTTTTCCCCCTGTGTGTGTGTTCCTGAGGCTGAGGGCTTATTTGGAATTTTG GATGGATAGGGATTAAGCTCAGGTTGGCATGGATGTTAGTACAAATGTACAATTTCCGTGCAAA TCTGGTAGGAATTTTTCCCTTCATATCCAAACAAGCCCTGAGTGAGCTCCCGGTTGCATGTGCT CGGTACTCCTCAGAGGGCCTTTGTGACAATTGGGCAGTGGATTTTTTTTAGTGGTTTTTTTAGC AGTTTTCTCAAGGCTCTGTAGGTTCTTGTTTCATTTGATGAAAACCGGTGAAGACAGATCATTT GTTGACTTTTGTGTTGCAAGACAAACCATACTGTTCTTATTAGTGCTTGATGCTTTTAAATGCC ATTTGTTGCTTTTGAATCTGTTGCGCATCTTAATCAACTAATTATAAATCTATGATAGCCATAT GCACTAATCAGGTTAAACTTGGATCCTCACAGGAGATAAAAAGTTGCTGACTCCGCAACCTCGG CTAAGGACAGGATTTTTCTCAGTTCTGGAATCTCACATGATACCCATTGGATGTATTCCAGAAG CATGTACTTCTGTTGGTGCAGCCAAATACGGGAGACCTATAGGTCTAGATGAAAAAATTAAAGT GGATTTGATTGTGATTGGATCGGTTGCAGTTGATCCAAGCACAGGAGCACGACTAGGAAAGGGC GAGGTAACTATTCTCTGCTTGTAATTGCATTTCTGCAGTTGAAGACTTGACGCAGAGTTTAATT TGTTTCTCTCCTGTACATTTGTATGGAAGAAATTAATAGAGGAAATAATGAGGTTTGACCTGCT TTCCTTCTTCCTTTGAGAGAAAAATTGAGCGATAGGCTTTTCACTTCTGTCCAATGTTGGCACT ATGTTGAAATGTTGAATCATGCTCTATCTACTGAAACTACTTATTCCCACTCCTTTATTTCATC AAAATGGTCTATAGGGATTTGCAGAGCTGGAATATGGGATGCTGCGTTATATGGGATCTATAAG CGATTCAACCATGATAGTAACAACTGGTGAGTTTTTTTATATTGATTCAGCTGGTTATCCCTTC TTGGATAACCTTTATATATTTTTTATCAAATTTAAATTAATTGCCTTTTAGCTCATTTGTTCCT TGATTAATAACTAATGTAAATTGCCAACTGTGTCTATGACTGCAGTGCATGACAAACAATTAGT GAATGACATTCCAGTTGAGAAGCTGTTAGTTCATGATGTACCAGTTGACATTATCTGCACTCCA ACTCAGGTCATATTCACAAATACCACGATCGCGAAACCACAAGGTATGAATGATTGTATTATTT AATATTTTGGTAAACCGGCAAAAAAACCTTATGTGACCAGATTTTTGGGGAACTTCTGCATGCA GGGATTTACTGGGAAAAGTTATCTCCAGAGAAATTGGGCCAAATCCGAATTCTACAGGAGCTGA AGAGACGCATAGAGAGTGAAACAGGAACTACACTTCCTTGTGGCCCTTCTGAGAAGCTACCACC AACAGCGCAGCGAAGAAGAAGAAAACGAAGACGGTGATGATTGA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.326373407

Conservation Information
Conserved circRNAs	NA
PMCS	0.326373407

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
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 Os12g0168000_circ_g.1

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