Plant Circular RNA Database

Detail information of Os03g0754200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0754200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_021943
					
						Alias
						Os03circ26899/Os_ciR1328
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 31095841-31097339  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os03g0754200						
					
						Parent gene annotation
						
							Similar to Triosephosphate isomerase. (Os03t0754200-01);Similar 
to Triosephosphate isomerase. (Os03t0754200-02);Similar to Trios
ephosphate isomerase. (Os03t0754200-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						5/12
					
						Tissues
						leaf/root
					
						Exon boundary  
						
							Yes-No							"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
						Os03t0754200-02:5
Os03t0754200-01:6
Os03t0754200-03:6

General Information
CircRNA Name	Os03g0754200_circ_g.1
ID in PlantcircBase	osa_circ_021943
Alias	Os03circ26899/Os_ciR1328
Organism	Oryza sativa
Position	chr3: 31095841-31097339 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os03g0754200
Parent gene annotation	Similar to Triosephosphate isomerase. (Os03t0754200-01);Similar to Triosephosphate isomerase. (Os03t0754200-02);Similar to Trios ephosphate isomerase. (Os03t0754200-03)
Parent gene strand	+
Alternative splicing	NA
Support reads	5/12
Tissues	leaf/root
Exon boundary	Yes-No "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	Os03t0754200-02:5 Os03t0754200-01:6 Os03t0754200-03:6

			
						 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  
						
							TACATGCTCTTGCCATAGGTCCTGTACTGCTTCGAACTGCAAGGAACTGGCAGTACAACCTGAT
CTTAATGGTTTTCTTGTCAGTGGAGCTTCATTGAAGatgtggtctccatgcggtcggggtgagg
tcttgaccaggctgacaggtggagaagcttggcgtgccttgatgagatcttcctcatgtccatc
accctagg

									
								

					

						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: 183
Transcript exons: 31095841-31095982,31097299-31097339
ATGTGGTCTCCATGCGGTCGGGGTGAGGTCTTGACCAGGCTGACAGGTGGAGAAGCTTGGCGTG
CCTTGATGAGATCTTCCTCATGTCCATCACCCTAGGCCGCAAGCGGCGCCATTGGCTTCTTTGC
CAACACAGGGTCTGCTGATCTTAATGGTTTTCTTGTCAGTGGAGCTTCATTGAAG
						
					

						Genomic sequence
						
							ATGTGGTCTCCATGCGGTCGGGGTGAGGTCTTGACCAGGCTGACAGGTGGAGAAGCTTGGCGTG
CCTTGATGAGATCTTCCTCATGTCCATCACCCTAGGCCGCAAGCGGCGCCATTGGCTTCTTTGC
CAACACAGGGTCTGCTCCGCCAACGTTGTTGTGTGAGTTACCTTCTTCCTCTCTGTTTTCTTTA
TCCCTTGTCAAGCAACCAAACCCTGACATGCTGACGATATCATGCAGCAATTGTGTATTTGAGC
ATGTTGATTTTGTGTGTGATGTGTAATCTGCAAGACTGCAACAGTTGATCCTATGTTGATGACA
GTAATACTATGGGAGGGAGGGAGAAGGTAAGCTAATCAAGAGCGATCTTGTTTTTTTTTGGGCA
TAATCAGGAGTGTCATCGAGGTGAAGCTTGGCAAGCTCAAGTGCATCAATGATGATTGCGCTTA
TATTCCCAAGCTGCAGCTACGAGCATTGGCCCATTGTCATGGATCATCCCAGCAGACTGTGTGC
CACCAAGTAGTAGATGATTGGCTGCTACATCCAGAGACGCTTGCCAAGGTTGTTGGACAGTGTT
TCTCGCTTCGAATCTTTCACCTGATTATTGCTTTCAGATTCTTAACATGATTTCCCAATATTTA
AATATTGACCTATCTTTGAAGGTGCCACAACGAGGAATAGGCCATGAAGAAGACATAATTTTCC
CCATTTTGTTTGTTGGCTCTGTACTCTCAAGAAACTAGCTTCCAGAGTATGATTTTTTTTTTTG
TTTCAATATTATGTACATTGTCTTTTTTTTTTGTTTTTTTTTTTTTTTGGGGGGGGGGGGTGAA
TTGTAGTCAATTAAGACAAATAGCAATATGATATGTATTTTATGAGAAATCAATGGTGCGTTGC
TTGATCTGGGAGAGGCACATCTCTGTTGGTAATCAGGCAAATCCACATGTTATTCTTTACTTTT
ACTGATTCAAGTAGTTAATGGCTTAATGCCGACAATGTCTCATAGTTACATCATTCGATGATAG
ATTATCACATCACCTGAAAATCCAGGCTGAAATGACTATAAACTAATTTACAGAAAGTATCAAG
GATTGACCTATGTGGTGGTTGCGTATGAACCTGTGTGTGCTTCTATTATTGATCAACACACAAA
TGTATATTTTTCCATGAAGTTACATAAGCATGTCTAGCTATCTTTTTCAATCGCAAATAGTCAT
AAACATCTTGTTTTAAACAATAATCAGGGTTGTATTATCGCGATAGGTGCATGGAGGCCTGAGG
AAGTTGCTCACTACTAATGTCAGAATCCACATGAATCATCTATGCAGGTATAGTTCATTTTATT
GAACAAATACATTATTTATGTGAAAACCATCTTGGTGTCTAGATGTACGGTTGTTTACATGCTC
TTGCCATAGGTCCTGTACTGCTTCGAACTGCAAGGAACTGGCAGTACAACCTGATCTTAATGGT
TTTCTTGTCAGTGGAGCTTCATTGAAG
						
					

			
		

Sequences
Splice junction sequence	TACATGCTCTTGCCATAGGTCCTGTACTGCTTCGAACTGCAAGGAACTGGCAGTACAACCTGAT CTTAATGGTTTTCTTGTCAGTGGAGCTTCATTGAAGatgtggtctccatgcggtcggggtgagg tcttgaccaggctgacaggtggagaagcttggcgtgccttgatgagatcttcctcatgtccatc accctagg
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: 183 Transcript exons: 31095841-31095982,31097299-31097339 ATGTGGTCTCCATGCGGTCGGGGTGAGGTCTTGACCAGGCTGACAGGTGGAGAAGCTTGGCGTG CCTTGATGAGATCTTCCTCATGTCCATCACCCTAGGCCGCAAGCGGCGCCATTGGCTTCTTTGC CAACACAGGGTCTGCTGATCTTAATGGTTTTCTTGTCAGTGGAGCTTCATTGAAG
Genomic sequence	ATGTGGTCTCCATGCGGTCGGGGTGAGGTCTTGACCAGGCTGACAGGTGGAGAAGCTTGGCGTG CCTTGATGAGATCTTCCTCATGTCCATCACCCTAGGCCGCAAGCGGCGCCATTGGCTTCTTTGC CAACACAGGGTCTGCTCCGCCAACGTTGTTGTGTGAGTTACCTTCTTCCTCTCTGTTTTCTTTA TCCCTTGTCAAGCAACCAAACCCTGACATGCTGACGATATCATGCAGCAATTGTGTATTTGAGC ATGTTGATTTTGTGTGTGATGTGTAATCTGCAAGACTGCAACAGTTGATCCTATGTTGATGACA GTAATACTATGGGAGGGAGGGAGAAGGTAAGCTAATCAAGAGCGATCTTGTTTTTTTTTGGGCA TAATCAGGAGTGTCATCGAGGTGAAGCTTGGCAAGCTCAAGTGCATCAATGATGATTGCGCTTA TATTCCCAAGCTGCAGCTACGAGCATTGGCCCATTGTCATGGATCATCCCAGCAGACTGTGTGC CACCAAGTAGTAGATGATTGGCTGCTACATCCAGAGACGCTTGCCAAGGTTGTTGGACAGTGTT TCTCGCTTCGAATCTTTCACCTGATTATTGCTTTCAGATTCTTAACATGATTTCCCAATATTTA AATATTGACCTATCTTTGAAGGTGCCACAACGAGGAATAGGCCATGAAGAAGACATAATTTTCC CCATTTTGTTTGTTGGCTCTGTACTCTCAAGAAACTAGCTTCCAGAGTATGATTTTTTTTTTTG TTTCAATATTATGTACATTGTCTTTTTTTTTTGTTTTTTTTTTTTTTTGGGGGGGGGGGGTGAA TTGTAGTCAATTAAGACAAATAGCAATATGATATGTATTTTATGAGAAATCAATGGTGCGTTGC TTGATCTGGGAGAGGCACATCTCTGTTGGTAATCAGGCAAATCCACATGTTATTCTTTACTTTT ACTGATTCAAGTAGTTAATGGCTTAATGCCGACAATGTCTCATAGTTACATCATTCGATGATAG ATTATCACATCACCTGAAAATCCAGGCTGAAATGACTATAAACTAATTTACAGAAAGTATCAAG GATTGACCTATGTGGTGGTTGCGTATGAACCTGTGTGTGCTTCTATTATTGATCAACACACAAA TGTATATTTTTCCATGAAGTTACATAAGCATGTCTAGCTATCTTTTTCAATCGCAAATAGTCAT AAACATCTTGTTTTAAACAATAATCAGGGTTGTATTATCGCGATAGGTGCATGGAGGCCTGAGG AAGTTGCTCACTACTAATGTCAGAATCCACATGAATCATCTATGCAGGTATAGTTCATTTTATT GAACAAATACATTATTTATGTGAAAACCATCTTGGTGTCTAGATGTACGGTTGTTTACATGCTC TTGCCATAGGTCCTGTACTGCTTCGAACTGCAAGGAACTGGCAGTACAACCTGATCTTAATGGT TTTCTTGTCAGTGGAGCTTCATTGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005118* osi_circ_005117* 						
					
						PMCS
						0.338889221

Conservation Information
Conserved circRNAs	osi_circ_005118* osi_circ_005117*
PMCS	0.338889221

			
						 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
						Lu et al., 2015;Ye et al., 2015

circRNA

Detail information of Os03g0754200_circ_g.1

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