Plant Circular RNA Database

Detail information of Os02g0672700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0672700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_015943
					
						Alias
						Os02circ21163/Os_ciR3342
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 27369997-27370365  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os02g0672700						
					
						Parent gene annotation
						
							DNA-directed RNA polymerase, M/15 kDa subunit domain containing 
protein. (Os02t0672700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/3/3
					
						Tissues
						leaf/root/shoot, root, seed
					
						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
						Os02t0672700-01:2

General Information
CircRNA Name	Os02g0672700_circ_g.2
ID in PlantcircBase	osa_circ_015943
Alias	Os02circ21163/Os_ciR3342
Organism	Oryza sativa
Position	chr2: 27369997-27370365 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, SMALT, Segemehl, find_circ
Parent gene	Os02g0672700
Parent gene annotation	DNA-directed RNA polymerase, M/15 kDa subunit domain containing protein. (Os02t0672700-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/3/3
Tissues	leaf/root/shoot, root, seed
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	Os02t0672700-01:2

			
						 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  
						
							TGCCTTTCGCAGATCGTGAAGAAGGCGAGACTAGTGAAGAAGGAGGTGGAGCCCATCTTCAGCG
ACAGCGACGCCATGAAGAATGCCCCTAAGACCACCAggtttagcgtcggatccagtctccaccg
gagcgcggggcggcggattccaaggcggcgatggagttctgcccggggtgcgggatgctgctgc
agatccag

						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: 223
Transcript exons: 27369997-27370042,27370064-27370164,27370290-27370365
GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTGCCCGGGGTGCGGGATG
CTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCTTCTACTGCCCCACCTGCCCCT
ACGTCTGCCCCGTCAAAAAGCGAGACTAGTGAAGAAGGAGGTGGAGCCCATCTTCAGCGACAGC
GACGCCATGAAGAATGCCCCTAAGACCACCA
Transcript length: 239
Transcript exons: 27369997-27370152,27370283-27370365
GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTCCAAGGCGGCGATGGAG
TTCTGCCCGGGGTGCGGGATGCTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCT
TCTACTGCCCCACCTGCCCCTACGTCTGGAAGAAGGCGAGACTAGTGAAGAAGGAGGTGGAGCC
CATCTTCAGCGACAGCGACGCCATGAAGAATGCCCCTAAGACCACCA
Transcript length: 260
Transcript exons: 27369997-27370166,27370276-27370365
GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTCCAAGGCGGCGATGGAG
TTCTGCCCGGGGTGCGGGATGCTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCT
TCTACTGCCCCACCTGCCCCTACGTCTGCCCCGTCAAAAACAAGATCGTGAAGAAGGCGAGACT
AGTGAAGAAGGAGGTGGAGCCCATCTTCAGCGACAGCGACGCCATGAAGAATGCCCCTAAGACC
ACCA
						
						Genomic sequence
						
							GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTCCAAGGCGGCGATGGAG
TTCTGCCCGGGGTGCGGGATGCTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCT
TCTACTGCCCCACCTGCCCCTACGTCTGCCCCGTCAAAAACAAGGCACGCCTCTTCTTAGCTCT
CTCCCCCCCTATCACTTCGCCTCCCTACTTCGTCTGCGACTTTGCGTATTGCTGCCGCGGCCTC
CGCGTTTGATTGATGCCTTTCGCAGATCGTGAAGAAGGCGAGACTAGTGAAGAAGGAGGTGGAG
CCCATCTTCAGCGACAGCGACGCCATGAAGAATGCCCCTAAGACCACCA

Sequences
Splice junction sequence	TGCCTTTCGCAGATCGTGAAGAAGGCGAGACTAGTGAAGAAGGAGGTGGAGCCCATCTTCAGCG ACAGCGACGCCATGAAGAATGCCCCTAAGACCACCAggtttagcgtcggatccagtctccaccg gagcgcggggcggcggattccaaggcggcgatggagttctgcccggggtgcgggatgctgctgc agatccag
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: 223 Transcript exons: 27369997-27370042,27370064-27370164,27370290-27370365 GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTGCCCGGGGTGCGGGATG CTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCTTCTACTGCCCCACCTGCCCCT ACGTCTGCCCCGTCAAAAAGCGAGACTAGTGAAGAAGGAGGTGGAGCCCATCTTCAGCGACAGC GACGCCATGAAGAATGCCCCTAAGACCACCA Transcript length: 239 Transcript exons: 27369997-27370152,27370283-27370365 GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTCCAAGGCGGCGATGGAG TTCTGCCCGGGGTGCGGGATGCTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCT TCTACTGCCCCACCTGCCCCTACGTCTGGAAGAAGGCGAGACTAGTGAAGAAGGAGGTGGAGCC CATCTTCAGCGACAGCGACGCCATGAAGAATGCCCCTAAGACCACCA Transcript length: 260 Transcript exons: 27369997-27370166,27370276-27370365 GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTCCAAGGCGGCGATGGAG TTCTGCCCGGGGTGCGGGATGCTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCT TCTACTGCCCCACCTGCCCCTACGTCTGCCCCGTCAAAAACAAGATCGTGAAGAAGGCGAGACT AGTGAAGAAGGAGGTGGAGCCCATCTTCAGCGACAGCGACGCCATGAAGAATGCCCCTAAGACC ACCA
Genomic sequence	GGTTTAGCGTCGGATCCAGTCTCCACCGGAGCGCGGGGCGGCGGATTCCAAGGCGGCGATGGAG TTCTGCCCGGGGTGCGGGATGCTGCTGCAGATCCAGCCGGCCACCGGCGGGAACCGCCTGCGCT TCTACTGCCCCACCTGCCCCTACGTCTGCCCCGTCAAAAACAAGGCACGCCTCTTCTTAGCTCT CTCCCCCCCTATCACTTCGCCTCCCTACTTCGTCTGCGACTTTGCGTATTGCTGCCGCGGCCTC CGCGTTTGATTGATGCCTTTCGCAGATCGTGAAGAAGGCGAGACTAGTGAAGAAGGAGGTGGAG CCCATCTTCAGCGACAGCGACGCCATGAAGAATGCCCCTAAGACCACCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.383965673

Conservation Information
Conserved circRNAs	NA
PMCS	0.383965673

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27370056-27370281(+)
27370349-27370354(+)
						
						Potential amino acid sequence
						
							MEFCPGCGMLLQIQPATGGNRLRFYCPTCPYVCPVKNKIVKKARLVKKEVEPIFSDSDAMKNAP
KTTRFSVGSSLHRSAGRRIPRRRWSSARGAGCCCRSSRPPAGTACASTAPPAPTSAPSKTRS*(
+)
MPLRPPGLASDPVSTGARGGGFQGGDGVLPGVRDAAADPAGHRREPPALLLPHLPLRLPRQKQD
REEGETSEEGGGAHLQRQRRHEECP*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27370056-27370281(+) 27370349-27370354(+)
Potential amino acid sequence	MEFCPGCGMLLQIQPATGGNRLRFYCPTCPYVCPVKNKIVKKARLVKKEVEPIFSDSDAMKNAP KTTRFSVGSSLHRSAGRRIPRRRWSSARGAGCCCRSSRPPAGTACASTAPPAPTSAPSKTRS( +) MPLRPPGLASDPVSTGARGGGFQGGDGVLPGVRDAAADPAGHRREPPALLLPHLPLRLPRQKQD REEGETSEEGGGAHLQRQRRHEECP(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os02g0672700_circ_g.2

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