Plant Circular RNA Database

Detail information of Os03g0238700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0238700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_018776
					
						Alias
						Os_ciR4779
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 7324303-7327873  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0238700						
					
						Parent gene annotation
						
							Similar to Acid phosphatase type 5. (Os03t0238700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0238700_circ_g.2 Os03g0238700_circ_g.3 						
					
						Support reads
						4
					
						Tissues
						root
					
						Exon boundary  
						
							No-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  
						
							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
						Os03t0238700-01:6

General Information
CircRNA Name	Os03g0238700_circ_g.1
ID in PlantcircBase	osa_circ_018776
Alias	Os_ciR4779
Organism	Oryza sativa
Position	chr3: 7324303-7327873 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os03g0238700
Parent gene annotation	Similar to Acid phosphatase type 5. (Os03t0238700-01)
Parent gene strand	-
Alternative splicing	Os03g0238700_circ_g.2 Os03g0238700_circ_g.3
Support reads	4
Tissues	root
Exon boundary	No-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	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	Os03t0238700-01:6

			
						 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  
						
							AATACCCAAAGATAGATTGACCCTCACCGTGAAGGCTCTTTGCCTAAGATAAGGTTTGTTGTCA
TCACTGTGCCACCCAATAGAAGCTCCCTTGCACCAAcattaggagcgtcagtgaccatggtgac
accaaggagcttctgcaacttctacttccagttctgaaggttatacagaagttgcctcgatatt
aagttctg

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CATTAGGAGCGTCAGTGACCATGGTGACACCAAGGAGCTTCTGCAACTTCTACTTCCAGTTCTG
AAGGTTATACAGAAGTTGCCTCGATATTAAGTTCTGAAGGATCCACAAAAAGAGTACTTCCTTA
TCACTGTTTCATGGAATTTCAGGTCAATGGCATCGACTTCTACATCAATGGGCACGACCACTGC
CTGGAACACATTAGCAGCAGAGACAGGTTAACATCATTTGACACAAAGTTTCCGCTTTTATGTC
ACAGTAATATAGAACAAAACATGTTTGCATAATCGATGAAACTTGTCTAACCTGAATGCATGCA
CTCCTATTGTTACAGTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGA
GTCTTGCAGCCAAATTCTGATAAGCTCCAGTTCTTTTACGATGGACAAGGGTTCATGTCCCTCC
AGATAAACCAGGACCAAGCTGACTTCATATTTTATGATGTTTCTGGGAACATCTTGTACAAGTG
GAGCAAGAGCAAAGCAAACTACCTCCAGCCCTCCACCTATATCACTGAAGCATGAGGCAGATGC
AAAACCACAAAACGGAGAATTAGCTTGGCTAAGATATTTGTATCAAATTTGAATGCATTATTGT
GGCACGCAAGGGAAGAGGACCGGAAAGGAAATAGGAAAGTATTTAAGCATGGCATGTGATTGAT
CTACTAAAGAAATTTGAGACAAGGCCGAGACCATCCTACTAGACTAGGAAAAGAGATGTTCAGT
ATGGTATCCATTAGATCTGATTCATACAACTTCTTGCCAGAGGACCATCGATTATGCCATGTAT
AATTTACAAAGAAGGCTTAAAACTCTAAAAGCTAGTAGTGACCTTTGCATATCGGCATCAGGGT
TCTTCAGTATTGCCAAGCATTCACATATAACCTTTGGAGAGAGAGAGAGAGAGAGAGAGACTTT
GGGGGTTTCTAAGCTGGTATTTTCATTTAAAAGAGACAATGAAAAGAAAATTTGATCTATGATA
ATCAAGCATGTGTCGGTGAAGACGGCTATTAGTTACTGCTTCTGGAAAAAGGTTGTAATTCAGT
ACAGAGTTGTGTACGTGTCCATTTGAATAAAAATTGCATATAACAGAATAAAATTATAATGAAA
ATTCTGGCAAGCAAGTTATGAAAGGTAAAATGAGGCTTTAACATGCCATATAAAAGCTCTCCAA
AATGCAAAGCTAGATAAATCCAACATTCTTGACACATCGTTCTTTTCAAAGAAAAAAAACACTA
TAATTTGAAACTAATTCTAGGTAACATCATCGCGACGTTATTACTATTAATGTATTGAAATTAT
CAGGTCAACATTTAGTTCCCTTCAGTGCATACCTGGGGAGAACAGGAACTGACAATAAAAATGG
CCTCACTGGACAGCCAATATGGCAAAAATGTCAACAGCTTTCTCTGCAATTCTTCTGAATAATT
CTCCCACATAGATACGGCTAATTCAAAATCACTCCATTCAAAATCAATCTCTACATTCTTATGT
GATCCAAATATGGTTTGTTCAAGGCCATGGTTGCATGGCAATGGTAGTTTTGTTCCTCTGGATT
GACTAACAGGACAGCAGACTGTTCCTGAACCACCAGAAGTTTGTTTCCTCTTTGCTGACAGCTC
AGGTGCTTTCCAGTAGTAAAACTGCACCACCTGTTTCAGAGATTTGCAAATCATAGAACACTGA
CACGCTTAACAGAACAGGATATAACACATTTGAATGCCATGTTTGGAAAGCAGGAATATCATAG
GAAACAGTTCCTTTTGTAAAGGAATTAGAAAAAAAAAGCATATTCTAATGGGGCATAAATAATT
TTTTATTTGTATTTTCTAAAAGATGTCAACTTATTTGAGGAATGTCATTCTCTAATACAACCAC
AGAATTTTCTGTTGTTATAGCATTCTCATGAAGATTTAGACTATAACATTGAAATAAAGGCATC
TTACACGTGCAGTAAAGGATAATAAAGTTTGACTATTGTAATCTAATGGACATGATCTGCAGAC
TAAAACTACTTAAAAAGTGAAAGTATGTAGATACCTGAAGAGCATGCAAGCCATTGGCAAAAAC
TTTGTCAAAGACATCATCTCCCCTACCAAGTCGTACTGGCTTCCCAAGCAACTCTATAGGGTCA
TCTTCAGCAGGTGCAACAGATTTATTGTCTTCATCAATGCTTGAGTGGAAAGAGAACCCAAGAA
TGTGCACTCTAGCACATCGTACGTCAAAACCAGAATGGTCATAGGCAAACCAATACATTATATC
AGAGGCTGGCAAAGGAATATAAGAACTCTGATGAACTGGTTCATAGTTCAGTGATGTCTGAGAA
AGAAAGGAAAGGAGCTTTGGGTCCTCGTCATAAGCACTGTCTCTGGTGAACCAAAGAGTTAGGG
TGAGTCTTTCACCTTCAGTCACCTGCAAAAATAGCTGCACTTTATTAATAAACAAGAAAGGGCA
CGCATCAACCTCAGAAGAAAAATAAAATCCCTTGACAAGATAATACTTTGGCCACATATGAATT
GATTGTTTACAAAAAACAAGGTGCAAGGGAAAAGGATAGACATAAATTAGGACTAAATCATTGA
TAACAAAATGTAGCCTCAATTACCTGTTGCAACTTAGAGCACACTCAAACAAATAATTTTATTT
GATTCATCAAAACAACAATAATAGTAACAGATATACTAACATCTTGCTGATTATCCAAGTGAAA
ACAGAAAATGTGACAAACAATGCCAATGAAAAGAATAGGCATGAACCCAGTACAGAAACAATCA
ACTGGCCCATGCAGGAAACAGAAATGTACCTCATCTACACAATGGGTATTACTATTATCTGCAG
TGTAGATGACAACATCCTGAAAACAACAGTACTTCTCAGAAATTCCAAGAATATATATTCATTT
AATTATTAAAAAAAATGCATGCATGCAAACTGTAAATCAAAATGCATTAGCTTACACCAGCAAC
TGGAGTAATAAAGGAAGGTTCACCATCCTGAAACTGCAAAATTCCACCTTTATAGTCCTTCCCA
TGATCGTTTAAGTAGCACACTGCCTTTTGATTGAAAGATGGAAATGGTGCATTCCATGCCATAT
TTTAATTCAGAAGGAAAAAGGGTCAGAACAAGAACTGAGAAGAGTGTTAGTCAAAAAAAAGAAC
TGAGAACAGTACATTTGAGTAAAAAGGGCCGCATTGAAATATAAACAACTACAACAACTGAGAA
AATGGAAGAGTATATTTTGGACAGGACCTAGATAGTCCCACAAACAGAGATAAATTACTCATAC
AAAATAAGATTAACTAGATAATCATACAAAAAAAATGCAATTCACAATATCAGAAGCACCGAAA
TGAATGCTTGCATGAAATACAGTTTGTTGGAACAGACAAAACAATATGTAGACATGAAAACAAC
TATAAAAGTTGACTAAATACCCAAAGATAGATTGACCCTCACCGTGAAGGCTCTTTGCCTAAGA
TAAGGTTTGTTGTCATCACTGTGCCACCCAATAGAAGCTCCCTTGCACCAA
						
					

			
		

Sequences
Splice junction sequence	AATACCCAAAGATAGATTGACCCTCACCGTGAAGGCTCTTTGCCTAAGATAAGGTTTGTTGTCA TCACTGTGCCACCCAATAGAAGCTCCCTTGCACCAAcattaggagcgtcagtgaccatggtgac accaaggagcttctgcaacttctacttccagttctgaaggttatacagaagttgcctcgatatt aagttctg
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CATTAGGAGCGTCAGTGACCATGGTGACACCAAGGAGCTTCTGCAACTTCTACTTCCAGTTCTG AAGGTTATACAGAAGTTGCCTCGATATTAAGTTCTGAAGGATCCACAAAAAGAGTACTTCCTTA TCACTGTTTCATGGAATTTCAGGTCAATGGCATCGACTTCTACATCAATGGGCACGACCACTGC CTGGAACACATTAGCAGCAGAGACAGGTTAACATCATTTGACACAAAGTTTCCGCTTTTATGTC ACAGTAATATAGAACAAAACATGTTTGCATAATCGATGAAACTTGTCTAACCTGAATGCATGCA CTCCTATTGTTACAGTCCTATCCAATACTTCACAAGTGGAGGTGGTTCAAAAGCATGGAGAGGA GTCTTGCAGCCAAATTCTGATAAGCTCCAGTTCTTTTACGATGGACAAGGGTTCATGTCCCTCC AGATAAACCAGGACCAAGCTGACTTCATATTTTATGATGTTTCTGGGAACATCTTGTACAAGTG GAGCAAGAGCAAAGCAAACTACCTCCAGCCCTCCACCTATATCACTGAAGCATGAGGCAGATGC AAAACCACAAAACGGAGAATTAGCTTGGCTAAGATATTTGTATCAAATTTGAATGCATTATTGT GGCACGCAAGGGAAGAGGACCGGAAAGGAAATAGGAAAGTATTTAAGCATGGCATGTGATTGAT CTACTAAAGAAATTTGAGACAAGGCCGAGACCATCCTACTAGACTAGGAAAAGAGATGTTCAGT ATGGTATCCATTAGATCTGATTCATACAACTTCTTGCCAGAGGACCATCGATTATGCCATGTAT AATTTACAAAGAAGGCTTAAAACTCTAAAAGCTAGTAGTGACCTTTGCATATCGGCATCAGGGT TCTTCAGTATTGCCAAGCATTCACATATAACCTTTGGAGAGAGAGAGAGAGAGAGAGAGACTTT GGGGGTTTCTAAGCTGGTATTTTCATTTAAAAGAGACAATGAAAAGAAAATTTGATCTATGATA ATCAAGCATGTGTCGGTGAAGACGGCTATTAGTTACTGCTTCTGGAAAAAGGTTGTAATTCAGT ACAGAGTTGTGTACGTGTCCATTTGAATAAAAATTGCATATAACAGAATAAAATTATAATGAAA ATTCTGGCAAGCAAGTTATGAAAGGTAAAATGAGGCTTTAACATGCCATATAAAAGCTCTCCAA AATGCAAAGCTAGATAAATCCAACATTCTTGACACATCGTTCTTTTCAAAGAAAAAAAACACTA TAATTTGAAACTAATTCTAGGTAACATCATCGCGACGTTATTACTATTAATGTATTGAAATTAT CAGGTCAACATTTAGTTCCCTTCAGTGCATACCTGGGGAGAACAGGAACTGACAATAAAAATGG CCTCACTGGACAGCCAATATGGCAAAAATGTCAACAGCTTTCTCTGCAATTCTTCTGAATAATT CTCCCACATAGATACGGCTAATTCAAAATCACTCCATTCAAAATCAATCTCTACATTCTTATGT GATCCAAATATGGTTTGTTCAAGGCCATGGTTGCATGGCAATGGTAGTTTTGTTCCTCTGGATT GACTAACAGGACAGCAGACTGTTCCTGAACCACCAGAAGTTTGTTTCCTCTTTGCTGACAGCTC AGGTGCTTTCCAGTAGTAAAACTGCACCACCTGTTTCAGAGATTTGCAAATCATAGAACACTGA CACGCTTAACAGAACAGGATATAACACATTTGAATGCCATGTTTGGAAAGCAGGAATATCATAG GAAACAGTTCCTTTTGTAAAGGAATTAGAAAAAAAAAGCATATTCTAATGGGGCATAAATAATT TTTTATTTGTATTTTCTAAAAGATGTCAACTTATTTGAGGAATGTCATTCTCTAATACAACCAC AGAATTTTCTGTTGTTATAGCATTCTCATGAAGATTTAGACTATAACATTGAAATAAAGGCATC TTACACGTGCAGTAAAGGATAATAAAGTTTGACTATTGTAATCTAATGGACATGATCTGCAGAC TAAAACTACTTAAAAAGTGAAAGTATGTAGATACCTGAAGAGCATGCAAGCCATTGGCAAAAAC TTTGTCAAAGACATCATCTCCCCTACCAAGTCGTACTGGCTTCCCAAGCAACTCTATAGGGTCA TCTTCAGCAGGTGCAACAGATTTATTGTCTTCATCAATGCTTGAGTGGAAAGAGAACCCAAGAA TGTGCACTCTAGCACATCGTACGTCAAAACCAGAATGGTCATAGGCAAACCAATACATTATATC AGAGGCTGGCAAAGGAATATAAGAACTCTGATGAACTGGTTCATAGTTCAGTGATGTCTGAGAA AGAAAGGAAAGGAGCTTTGGGTCCTCGTCATAAGCACTGTCTCTGGTGAACCAAAGAGTTAGGG TGAGTCTTTCACCTTCAGTCACCTGCAAAAATAGCTGCACTTTATTAATAAACAAGAAAGGGCA CGCATCAACCTCAGAAGAAAAATAAAATCCCTTGACAAGATAATACTTTGGCCACATATGAATT GATTGTTTACAAAAAACAAGGTGCAAGGGAAAAGGATAGACATAAATTAGGACTAAATCATTGA TAACAAAATGTAGCCTCAATTACCTGTTGCAACTTAGAGCACACTCAAACAAATAATTTTATTT GATTCATCAAAACAACAATAATAGTAACAGATATACTAACATCTTGCTGATTATCCAAGTGAAA ACAGAAAATGTGACAAACAATGCCAATGAAAAGAATAGGCATGAACCCAGTACAGAAACAATCA ACTGGCCCATGCAGGAAACAGAAATGTACCTCATCTACACAATGGGTATTACTATTATCTGCAG TGTAGATGACAACATCCTGAAAACAACAGTACTTCTCAGAAATTCCAAGAATATATATTCATTT AATTATTAAAAAAAATGCATGCATGCAAACTGTAAATCAAAATGCATTAGCTTACACCAGCAAC TGGAGTAATAAAGGAAGGTTCACCATCCTGAAACTGCAAAATTCCACCTTTATAGTCCTTCCCA TGATCGTTTAAGTAGCACACTGCCTTTTGATTGAAAGATGGAAATGGTGCATTCCATGCCATAT TTTAATTCAGAAGGAAAAAGGGTCAGAACAAGAACTGAGAAGAGTGTTAGTCAAAAAAAAGAAC TGAGAACAGTACATTTGAGTAAAAAGGGCCGCATTGAAATATAAACAACTACAACAACTGAGAA AATGGAAGAGTATATTTTGGACAGGACCTAGATAGTCCCACAAACAGAGATAAATTACTCATAC AAAATAAGATTAACTAGATAATCATACAAAAAAAATGCAATTCACAATATCAGAAGCACCGAAA TGAATGCTTGCATGAAATACAGTTTGTTGGAACAGACAAAACAATATGTAGACATGAAAACAAC TATAAAAGTTGACTAAATACCCAAAGATAGATTGACCCTCACCGTGAAGGCTCTTTGCCTAAGA TAAGGTTTGTTGTCATCACTGTGCCACCCAATAGAAGCTCCCTTGCACCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004662* osi_circ_014110 						
					
						PMCS
						0.32049906

Conservation Information
Conserved circRNAs	osi_circ_004662* osi_circ_014110
PMCS	0.32049906

			
						 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

circRNA

Detail information of Os03g0238700_circ_g.1

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