Plant Circular RNA Database

Detail information of Os12g0171200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os12g0171200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_010646
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 3621555-3622853  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os12g0171200						
					
						Parent gene annotation
						
							Similar to tRNA adenylyltransferase-like protein. (Os12t0171200-
01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0171200_circ_g.4 						
					
						Support reads
						1
					
						Tissues
						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
						Os12t0171200-01:5

General Information
CircRNA Name	Os12g0171200_circ_g.3
ID in PlantcircBase	osa_circ_010646
Alias	NA
Organism	Oryza sativa
Position	chr12: 3621555-3622853 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os12g0171200
Parent gene annotation	Similar to tRNA adenylyltransferase-like protein. (Os12t0171200- 01)
Parent gene strand	+
Alternative splicing	Os12g0171200_circ_g.4
Support reads	1
Tissues	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	Os12t0171200-01:5

			
						 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  
						
							CTGTTAATGCAATGTGTTATATTCGTGATTTGGGGTTATTTTATGTTGTCTTTGCTTTTCCTGA
GAAGCCCGACCCTCCAGTTCCTGACAAATGTGACCGgagattggtacagccaaagaagatgcat
tccgtagggacctaacaataaataggtatttgttttcagatcagttctgctctgcatttaaagt
aatgcttt

									
								

					

						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: 440
Transcript exons: 3621555-3621607,3621711-3621760,3621865-3621963,3622464-
3622573,3622726-3622853
GAGATTGGTACAGCCAAAGAAGATGCATTCCGTAGGGACCTAACAATAAATAGTTTATTCTTCA
ATATCAACACTAACACAGTGGAAGATTTAACCGGAAGAGGTATTGAAGATCTGAAAAAGGGTCT
TATTGTTACTCCTTTACCTGCCAAAGCTACCTTCTTGGATGACCCCCTTAGAGTTCTTCGAGCA
ATCCGATTTGCTGCTAGATTCAACTTTACATTAACTGAAGATTTGAAAGATGCTGCTTCTGATG
AAAAGGTGAAGTCTGAACTTGGTAGCAAGATTAGCAAAGAGCGCATCGGTCATGAGGTAGATCT
TATGATGTCAGACAAACATCCTGTTAATGCAATGTGTTATATTCGTGATTTGGGGTTATTTTAT
GTTGTCTTTGCTTTTCCTGAGAAGCCCGACCCTCCAGTTCCTGACAAATGTGACCG
						
					

						Genomic sequence
						
							GAGATTGGTACAGCCAAAGAAGATGCATTCCGTAGGGACCTAACAATAAATAGGTATTTGTTTT
CAGATCAGTTCTGCTCTGCATTTAAAGTAATGCTTTTATTGCTACAATGTTGAGTTGTCTAGTA
AACTCTTTCTATATTCAAACTTGGACAGTTTATTCTTCAATATCAACACTAACACAGTGGAAGA
TTTAACCGGAAGAGGTGAGCTTGGTTGTTGGATCCTAACATAGAAGCTTTTAGATATACATAAC
CTTTTTCAAATGTTCATGCTGTTTGTAATCATGTTGATTTCATATTCCATGAAGGTATTGAAGA
TCTGAAAAAGGGTCTTATTGTTACTCCTTTACCTGCCAAAGCTACCTTCTTGGATGACCCCCTT
AGAGTTCTTCGAGCAATCCGATTTGGTAAAACATCCTTTTAATTGATATACAATATTTCCATTG
CTAATTTTATGCTAAGCTATACCATTGTTGTTGGCTTTTTAGGACTTGATGGTGTTATCATCAT
TATCATCACAAATATACTTTCAGATTACAGATTTATTCATGACAAGTTTATTTTCCTAAAAGTA
AATAACATCTCATATTTAATTGCATTCGTACTGGGCAAATTGGCCGCTGAAAACTCCAGAATTG
CTTTTCTGTTTCAAGTTAGATACTCTTTGCTGAATGTTCATCAATAGCCAGTTTAGATTCACTT
TATATGCTTATGTTATCATGTGCACGAATCATGATATTTGAATTTTCTTTGCATATAAGAGCTT
GATAATTATAGGCATGATATCAGTAGACATGTAATTGTCTACTGATAATTGAACTGGATACCTT
GTTTATAGATTTATCATTGAATAGCGTGCATGGAACATTGCATTTCTTTTGCATATACTAATGC
ATATCTCTCACAGCTGCTAGATTCAACTTTACATTAACTGAAGATTTGAAAGATGCTGCTTCTG
ATGAAAAGGTGAAGTCTGAACTTGGTAGCAAGATTAGCAAAGAGCGCATCGGTCATGAGGTTTG
GTTTTGGTCCTACTTATAGCCAACCTACAATTCCTCTTTTCTTTCTTCATGAACGTAAAACTAA
CCAGACATCATCATTCAATATGTATTGAGTAACATAATAGAACGCCCATTATCACCAATTTAAT
CTGCTTGTATTTCGTGCAGGTAGATCTTATGATGTCAGACAAACATCCTGTTAATGCAATGTGT
TATATTCGTGATTTGGGGTTATTTTATGTTGTCTTTGCTTTTCCTGAGAAGCCCGACCCTCCAG
TTCCTGACAAATGTGACCG
						
					

			
		

Sequences
Splice junction sequence	CTGTTAATGCAATGTGTTATATTCGTGATTTGGGGTTATTTTATGTTGTCTTTGCTTTTCCTGA GAAGCCCGACCCTCCAGTTCCTGACAAATGTGACCGgagattggtacagccaaagaagatgcat tccgtagggacctaacaataaataggtatttgttttcagatcagttctgctctgcatttaaagt aatgcttt
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: 440 Transcript exons: 3621555-3621607,3621711-3621760,3621865-3621963,3622464- 3622573,3622726-3622853 GAGATTGGTACAGCCAAAGAAGATGCATTCCGTAGGGACCTAACAATAAATAGTTTATTCTTCA ATATCAACACTAACACAGTGGAAGATTTAACCGGAAGAGGTATTGAAGATCTGAAAAAGGGTCT TATTGTTACTCCTTTACCTGCCAAAGCTACCTTCTTGGATGACCCCCTTAGAGTTCTTCGAGCA ATCCGATTTGCTGCTAGATTCAACTTTACATTAACTGAAGATTTGAAAGATGCTGCTTCTGATG AAAAGGTGAAGTCTGAACTTGGTAGCAAGATTAGCAAAGAGCGCATCGGTCATGAGGTAGATCT TATGATGTCAGACAAACATCCTGTTAATGCAATGTGTTATATTCGTGATTTGGGGTTATTTTAT GTTGTCTTTGCTTTTCCTGAGAAGCCCGACCCTCCAGTTCCTGACAAATGTGACCG
Genomic sequence	GAGATTGGTACAGCCAAAGAAGATGCATTCCGTAGGGACCTAACAATAAATAGGTATTTGTTTT CAGATCAGTTCTGCTCTGCATTTAAAGTAATGCTTTTATTGCTACAATGTTGAGTTGTCTAGTA AACTCTTTCTATATTCAAACTTGGACAGTTTATTCTTCAATATCAACACTAACACAGTGGAAGA TTTAACCGGAAGAGGTGAGCTTGGTTGTTGGATCCTAACATAGAAGCTTTTAGATATACATAAC CTTTTTCAAATGTTCATGCTGTTTGTAATCATGTTGATTTCATATTCCATGAAGGTATTGAAGA TCTGAAAAAGGGTCTTATTGTTACTCCTTTACCTGCCAAAGCTACCTTCTTGGATGACCCCCTT AGAGTTCTTCGAGCAATCCGATTTGGTAAAACATCCTTTTAATTGATATACAATATTTCCATTG CTAATTTTATGCTAAGCTATACCATTGTTGTTGGCTTTTTAGGACTTGATGGTGTTATCATCAT TATCATCACAAATATACTTTCAGATTACAGATTTATTCATGACAAGTTTATTTTCCTAAAAGTA AATAACATCTCATATTTAATTGCATTCGTACTGGGCAAATTGGCCGCTGAAAACTCCAGAATTG CTTTTCTGTTTCAAGTTAGATACTCTTTGCTGAATGTTCATCAATAGCCAGTTTAGATTCACTT TATATGCTTATGTTATCATGTGCACGAATCATGATATTTGAATTTTCTTTGCATATAAGAGCTT GATAATTATAGGCATGATATCAGTAGACATGTAATTGTCTACTGATAATTGAACTGGATACCTT GTTTATAGATTTATCATTGAATAGCGTGCATGGAACATTGCATTTCTTTTGCATATACTAATGC ATATCTCTCACAGCTGCTAGATTCAACTTTACATTAACTGAAGATTTGAAAGATGCTGCTTCTG ATGAAAAGGTGAAGTCTGAACTTGGTAGCAAGATTAGCAAAGAGCGCATCGGTCATGAGGTTTG GTTTTGGTCCTACTTATAGCCAACCTACAATTCCTCTTTTCTTTCTTCATGAACGTAAAACTAA CCAGACATCATCATTCAATATGTATTGAGTAACATAATAGAACGCCCATTATCACCAATTTAAT CTGCTTGTATTTCGTGCAGGTAGATCTTATGATGTCAGACAAACATCCTGTTAATGCAATGTGT TATATTCGTGATTTGGGGTTATTTTATGTTGTCTTTGCTTTTCCTGAGAAGCCCGACCCTCCAG TTCCTGACAAATGTGACCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.220811804

Conservation Information
Conserved circRNAs	NA
PMCS	0.220811804

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3622736-3621594(+)
3622761-3621586(+)
3622565-3622759(-)
3621584-3622791(-)
						
						Potential amino acid sequence
						
							MMSDKHPVNAMCYIRDLGLFYVVFAFPEKPDPPVPDKCDRRLVQPKKMHSVGT*(+)
MQCVIFVIWGYFMLSLLFLRSPTLQFLTNVTGDWYSQRRCIP*(+)
MRSLLILLPSSDFTFSSEAASFKSSVNVKLNLAANRIARRTLRGSSKKVALAGKGVTIRPFFRS
SIPLPVKSSTVLVLILKNKLFIVRSLRNASSLAVPISGHICQELEGRASQEKQRQHKITPNHEY
NTLH*(-)
MHLLWLYQSPVTFVRNWRVGLLRKSKDNIK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3622736-3621594(+) 3622761-3621586(+) 3622565-3622759(-) 3621584-3622791(-)
Potential amino acid sequence	MMSDKHPVNAMCYIRDLGLFYVVFAFPEKPDPPVPDKCDRRLVQPKKMHSVGT(+) MQCVIFVIWGYFMLSLLFLRSPTLQFLTNVTGDWYSQRRCIP(+) MRSLLILLPSSDFTFSSEAASFKSSVNVKLNLAANRIARRTLRGSSKKVALAGKGVTIRPFFRS SIPLPVKSSTVLVLILKNKLFIVRSLRNASSLAVPISGHICQELEGRASQEKQRQHKITPNHEY NTLH(-) MHLLWLYQSPVTFVRNWRVGLLRKSKDNIK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0171200_circ_g.3

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