Plant Circular RNA Database

Detail information of Os01g0969200_circ_ig.3

			
						 General Information
					
						CircRNA Name
						Os01g0969200_circ_ig.3
					
						ID in PlantcircBase
						osa_circ_005990
					
						Alias
						Os_ciR813
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 42754669-42798001  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os01g0969200_circ_ig.1 Os01g0969200_circ_ig.2 						
					
						Support reads
						42
					
						Tissues
						root
					
						Exon boundary  
						
							No-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  
						
							CT-AC							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
						NA

General Information
CircRNA Name	Os01g0969200_circ_ig.3
ID in PlantcircBase	osa_circ_005990
Alias	Os_ciR813
Organism	Oryza sativa
Position	chr1: 42754669-42798001 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os01g0969200_circ_ig.1 Os01g0969200_circ_ig.2
Support reads	42
Tissues	root
Exon boundary	No-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	CT-AC 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	NA

			
						 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  
						
							GTTTCTTTGATAATTCAACATAGTATTTCGCATACTGTTTTTCAACATCATATGTATTAAAATA
CATATGATATCTATCCCAATTGGCATACATGCAACCatcatttttaatgactagacgttgatag
tcaacaagtgcagcaagcttgcaatactcagggtggaagtaccaaacaaatatgtaatcaaagc
acttaaga

									
								

					

						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: 148
Transcript exons: 42754669-42754792,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAATCC
CAATTGGCATACATGCAACC
Transcript length: 169
Transcript exons: 42754669-42754813,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCAATCCCAATTGGCATACATGCAACC
Transcript length: 189
Transcript exons: 42754669-42754833,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACATCCCAATTGGCATACATGCAACC
Transcript length: 195
Transcript exons: 42754669-42754830,42797969-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGATGATATCTATCCCAATTGGCATACATGCA
ACC
Transcript length: 196
Transcript exons: 42754669-42754840,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCATCCCAATTGGCATACATGC
AACC
Transcript length: 202
Transcript exons: 42754669-42754847,42797979-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTCCCAATTGGCAT
ACATGCAACC
Transcript length: 210
Transcript exons: 42754669-42754852,42797976-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACCTATCCCA
ATTGGCATACATGCAACC
Transcript length: 210
Transcript exons: 42754669-42754855,42797979-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCCCA
ATTGGCATACATGCAACC
Transcript length: 217
Transcript exons: 42754669-42754850,42797967-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGATATGATATC
TATCCCAATTGGCATACATGCAACC
Transcript length: 217
Transcript exons: 42754669-42754861,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AATCCCAATTGGCATACATGCAACC
Transcript length: 229
Transcript exons: 42754669-42754873,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AGGGTATTGATTTATCCCAATTGGCATACATGCAACC
Transcript length: 233
Transcript exons: 42754669-42754877,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AGGGTATTGATTTATCAATCCCAATTGGCATACATGCAACC
Transcript length: 235
Transcript exons: 42754669-42754881,42797980-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AGGGTATTGATTTATCATTTCCCCAATTGGCATACATGCAACC
Transcript length: 240
Transcript exons: 42754669-42754883,42797977-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AGGGTATTGATTTATCATTTCATTATCCCAATTGGCATACATGCAACC
Transcript length: 249
Transcript exons: 42754669-42754893,42797978-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AGGGTATTGATTTATCATTTCATCATGGTCCAGATCCCAATTGGCATACATGCAACC
Transcript length: 255
Transcript exons: 42754669-42754893,42797972-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AGGGTATTGATTTATCATTTCATCATGGTCCAGATATCTATCCCAATTGGCATACATGCAACC
Transcript length: 260
Transcript exons: 42754669-42754894,42797968-42798001
ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG
AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG
AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA
AGGGTATTGATTTATCATTTCATCATGGTCCAGCTATGATATCTATCCCAATTGGCATACATGC
AACC
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	GTTTCTTTGATAATTCAACATAGTATTTCGCATACTGTTTTTCAACATCATATGTATTAAAATA CATATGATATCTATCCCAATTGGCATACATGCAACCatcatttttaatgactagacgttgatag tcaacaagtgcagcaagcttgcaatactcagggtggaagtaccaaacaaatatgtaatcaaagc acttaaga
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: 148 Transcript exons: 42754669-42754792,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAATCC CAATTGGCATACATGCAACC Transcript length: 169 Transcript exons: 42754669-42754813,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCAATCCCAATTGGCATACATGCAACC Transcript length: 189 Transcript exons: 42754669-42754833,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACATCCCAATTGGCATACATGCAACC Transcript length: 195 Transcript exons: 42754669-42754830,42797969-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGATGATATCTATCCCAATTGGCATACATGCA ACC Transcript length: 196 Transcript exons: 42754669-42754840,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCATCCCAATTGGCATACATGC AACC Transcript length: 202 Transcript exons: 42754669-42754847,42797979-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTCCCAATTGGCAT ACATGCAACC Transcript length: 210 Transcript exons: 42754669-42754852,42797976-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACCTATCCCA ATTGGCATACATGCAACC Transcript length: 210 Transcript exons: 42754669-42754855,42797979-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCCCA ATTGGCATACATGCAACC Transcript length: 217 Transcript exons: 42754669-42754850,42797967-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGATATGATATC TATCCCAATTGGCATACATGCAACC Transcript length: 217 Transcript exons: 42754669-42754861,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AATCCCAATTGGCATACATGCAACC Transcript length: 229 Transcript exons: 42754669-42754873,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AGGGTATTGATTTATCCCAATTGGCATACATGCAACC Transcript length: 233 Transcript exons: 42754669-42754877,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AGGGTATTGATTTATCAATCCCAATTGGCATACATGCAACC Transcript length: 235 Transcript exons: 42754669-42754881,42797980-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AGGGTATTGATTTATCATTTCCCCAATTGGCATACATGCAACC Transcript length: 240 Transcript exons: 42754669-42754883,42797977-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AGGGTATTGATTTATCATTTCATTATCCCAATTGGCATACATGCAACC Transcript length: 249 Transcript exons: 42754669-42754893,42797978-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AGGGTATTGATTTATCATTTCATCATGGTCCAGATCCCAATTGGCATACATGCAACC Transcript length: 255 Transcript exons: 42754669-42754893,42797972-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AGGGTATTGATTTATCATTTCATCATGGTCCAGATATCTATCCCAATTGGCATACATGCAACC Transcript length: 260 Transcript exons: 42754669-42754894,42797968-42798001 ATCATTTTTAATGACTAGACGTTGATAGTCAACAAGTGCAGCAAGCTTGCAATACTCAGGGTGG AAGTACCAAACAAATATGTAATCAAAGCACTTAAGAACCTCCCAGAGGACCTCATCATCAACAG AATCAAGTGTGCCATCATTTTCAAAGCATATAAGGACCTCCTCCAGCTGCTTAGACATGTCAAA AGGGTATTGATTTATCATTTCATCATGGTCCAGCTATGATATCTATCCCAATTGGCATACATGC AACC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.610312041

Conservation Information
Conserved circRNAs	NA
PMCS	0.610312041

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							osa-miR3979-5p 						
					
						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	osa-miR3979-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os01g0969200_circ_ig.3

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