Plant Circular RNA Database

Detail information of Os04g0503600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os04g0503600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_024493
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 25141867-25143995  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os04g0503600						
					
						Parent gene annotation
						
							Similar to OSIGBa0112M24.5 protein. (Os04t0503600-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						Tissues
						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
						Os04t0503600-01:3

General Information
CircRNA Name	Os04g0503600_circ_g.2
ID in PlantcircBase	osa_circ_024493
Alias	NA
Organism	Oryza sativa
Position	chr4: 25141867-25143995 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os04g0503600
Parent gene annotation	Similar to OSIGBa0112M24.5 protein. (Os04t0503600-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
Tissues	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	Os04t0503600-01:3

			
						 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  
						
							TGATGTATTCTCTTATGGAGTTTTGCTCCTGGAAATTCTTTCTGGTCGTCGTCCTATTGAGGTC
AGGAGAGCTGCAAGAGAAAGGATCACCGTGAGATGGtttggattgcacttgtcagagtaaaagg
gctaaggacactatgctaatttaagacatctcatccaaatgaggcgcaccacacttctttgttg
gcaaactg

									
								

					

						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: 1922
Transcript exons: 25141867-25142102,25142236-25143073,25143148-25143995
TTTGGATTGCACTTGTCAGAGTAAAAGGGCTAAGGACACTATGCTAATTTAAGACATCTCATCC
AAATGAGGCGCACCACACTTCTTTGTTGGCAAACTGAAATCAGATAGCATTCTGGTAGCCACTA
AACCTACAGGGATGTTTCTTGTGTGTTTTGAAGCCATGTGCCCCTGTTTTGGTTCAAGAAGGAA
GGATGGGAGCGAAGACCCTGTTCTTGGAAGGGATGGAAATTCCTTGAATTCTTCTGAGCTGAGG
TCAATGTCTGATAGAGTTCCTCCAAGCCCTCTTCGAGTACCTGCAAGTCCATCTAGATTTTCAT
TGTCTTCATCACCAAGTAGAAATGAGCCATTGAACCTGAGTCTTGAACAAGTTATTAAACTGAC
ACATAACTTTGCACCAGACCTGATGATTGGTGAAGGTTATTTTGGAAAGGTCTACAGAGCACAG
CTGCGAGATGGCCACATTGTGGCAATTAAAAGGGCAAAAATGGTAGGTTTTATTTTTTATTTTT
ATTTTTTTAATAAAAAGCAGTGTTGGCGCAATGATAGTGGCTGTCAACAAGCAGCTATACTAGA
GATTTCTCTATTTAGAATGACTGAGGTGTTTTTTTTCAAGTAGTCTCGCTGGTTGATCCATTTT
TGTGTAGATCAGTACGGTAATGAAACAGTAATGCACTGGTAAAGCATGTACTCACATTGCATTC
TTTGCACCAGTAGTTGTGGATAGTTATTATAATTTGGTGTTTTTCACCGCTTGATCTTGTTGGT
CACTAGTCAAATTTCTTTTGCAATTTATATTTATTCAAAAGGTCCTGATAAAGTATTAAAGTTG
CTGATAGAAACTCTGCTTCCTACATGTGATTTTTCTTACAAGTGAATCGCAGTTTTCATCCGGT
TTCTTTATGCAGGAACATTTTGCCTCTTTACGGGCCGAATTCAGTAATGAAATTGCATTACTAA
AAAAAATTGAACACAGGAATTTGGTCCAATTACTTGGTTATATCGACAAAAGAAATGAACGAAT
CGTCATAACTGAGTATGTTCCAAACGGCACTCTTAGGGAGCATCTAGATGGTCAACGTGGGCTT
GTTTTAAGCTTTAATCAGCGGCTTGAAATAGCTATAGATGTTGCTCATGGGTTAACTTATTTGC
ATCTATATGCAGGTATGCTTTGTCACATGTTTCTGTTGCTGAGCATAAAAACAGTTTAAAAAAA
CAACTGACTGTTATTTTTATTTTTATTTTTATACCAAGTCATGCATCGGGGTATTGTCACTAAG
TAATGCAAGAACTGTAAACCAGTATTTTAACTATATTTTCCCCCTCTAAAGGTTGGTCCATTGG
CTCATAATCTGCTAATAAATGCTAGTATCAGATATCCTGACTGTAATGTTCTGTAGTTCGGAAA
TTGTTTGTGGCTGTGCATCAATAAAGGTTGTGAAATGAGCCTAACAACCAAGTTGAATAAACCA
TGAAAATTAGCCATGTAATCAGATGTGTATCTGATTTTAATTCTTTGATCTTCAAGCTTTAAAG
TAGCTTACAGAGATTCTAGTTTGACTATTCCTATTGGCAATTTGCATATGTATTTTATTTATTT
GTTCTGTACTTTTATGCTTTTAGAGAAGCCCATAATACACAGGGATGTGAAGTCATCAAACATT
CTACTAAATGAAGGCTTCAGGGCCAAAGTGGCCGACTTTGGATTTGCAAGGACTGGTCCTACAG
AGCCAGACCAGTCACAGATTCAGACTGATGTGAGAGGAACAGCTGGCTATGTAGATCCAGAGTA
TCTCAGGACAAACCATCTGACAGTCAAGAGTGATGTATTCTCTTATGGAGTTTTGCTCCTGGAA
ATTCTTTCTGGTCGTCGTCCTATTGAGGTCAGGAGAGCTGCAAGAGAAAGGATCACCGTGAGAT
GG
						
					

						Genomic sequence
						
							TTTGGATTGCACTTGTCAGAGTAAAAGGGCTAAGGACACTATGCTAATTTAAGACATCTCATCC
AAATGAGGCGCACCACACTTCTTTGTTGGCAAACTGAAATCAGATAGCATTCTGGTAGCCACTA
AACCTACAGGGATGTTTCTTGTGTGTTTTGAAGCCATGTGCCCCTGTTTTGGTTCAAGAAGGAA
GGATGGGAGCGAAGACCCTGTTCTTGGAAGGGATGGAAATTCCTGTAAGTTAAATAGCAAGCTT
TCATCTATTGGTGATCTAATCTGTTAACACAATGAAACAATGTAGATGTCACGTTTGGAAGTAT
AAATGACCATCATGAATTGTGACACATTCCTTCATCCTTGTTTTTCCAGTGAATTCTTCTGAGC
TGAGGTCAATGTCTGATAGAGTTCCTCCAAGCCCTCTTCGAGTACCTGCAAGTCCATCTAGATT
TTCATTGTCTTCATCACCAAGTAGAAATGAGCCATTGAACCTGAGTCTTGAACAAGTTATTAAA
CTGACACATAACTTTGCACCAGACCTGATGATTGGTGAAGGTTATTTTGGAAAGGTCTACAGAG
CACAGCTGCGAGATGGCCACATTGTGGCAATTAAAAGGGCAAAAATGGTAGGTTTTATTTTTTA
TTTTTATTTTTTTAATAAAAAGCAGTGTTGGCGCAATGATAGTGGCTGTCAACAAGCAGCTATA
CTAGAGATTTCTCTATTTAGAATGACTGAGGTGTTTTTTTTCAAGTAGTCTCGCTGGTTGATCC
ATTTTTGTGTAGATCAGTACGGTAATGAAACAGTAATGCACTGGTAAAGCATGTACTCACATTG
CATTCTTTGCACCAGTAGTTGTGGATAGTTATTATAATTTGGTGTTTTTCACCGCTTGATCTTG
TTGGTCACTAGTCAAATTTCTTTTGCAATTTATATTTATTCAAAAGGTCCTGATAAAGTATTAA
AGTTGCTGATAGAAACTCTGCTTCCTACATGTGATTTTTCTTACAAGTGAATCGCAGTTTTCAT
CCGGTTTCTTTATGCAGGAACATTTTGCCTCTTTACGGGCCGAATTCAGTAATGAAATTGCATT
ACTAAAAAAAATTGAACACAGGAATTTGGTCCAATTACTTGGTTATATCGACAAAAGAAATGAA
CGAATCGTCATAACTGAGTATGTTCCAAACGGCACTCTTAGGGAGCATCTAGATGGTAAACTGC
ATACTAAGATTCTCTTTTGTTGAATTCCATATAGAACAATCAGTAATTTTCAAATTATCTTTCA
GGTCAACGTGGGCTTGTTTTAAGCTTTAATCAGCGGCTTGAAATAGCTATAGATGTTGCTCATG
GGTTAACTTATTTGCATCTATATGCAGGTATGCTTTGTCACATGTTTCTGTTGCTGAGCATAAA
AACAGTTTAAAAAAACAACTGACTGTTATTTTTATTTTTATTTTTATACCAAGTCATGCATCGG
GGTATTGTCACTAAGTAATGCAAGAACTGTAAACCAGTATTTTAACTATATTTTCCCCCTCTAA
AGGTTGGTCCATTGGCTCATAATCTGCTAATAAATGCTAGTATCAGATATCCTGACTGTAATGT
TCTGTAGTTCGGAAATTGTTTGTGGCTGTGCATCAATAAAGGTTGTGAAATGAGCCTAACAACC
AAGTTGAATAAACCATGAAAATTAGCCATGTAATCAGATGTGTATCTGATTTTAATTCTTTGAT
CTTCAAGCTTTAAAGTAGCTTACAGAGATTCTAGTTTGACTATTCCTATTGGCAATTTGCATAT
GTATTTTATTTATTTGTTCTGTACTTTTATGCTTTTAGAGAAGCCCATAATACACAGGGATGTG
AAGTCATCAAACATTCTACTAAATGAAGGCTTCAGGGCCAAAGTGGCCGACTTTGGATTTGCAA
GGACTGGTCCTACAGAGCCAGACCAGTCACAGATTCAGACTGATGTGAGAGGAACAGCTGGCTA
TGTAGATCCAGAGTATCTCAGGACAAACCATCTGACAGTCAAGAGTGATGTATTCTCTTATGGA
GTTTTGCTCCTGGAAATTCTTTCTGGTCGTCGTCCTATTGAGGTCAGGAGAGCTGCAAGAGAAA
GGATCACCGTGAGATGG
						
					

			
		

Sequences
Splice junction sequence	TGATGTATTCTCTTATGGAGTTTTGCTCCTGGAAATTCTTTCTGGTCGTCGTCCTATTGAGGTC AGGAGAGCTGCAAGAGAAAGGATCACCGTGAGATGGtttggattgcacttgtcagagtaaaagg gctaaggacactatgctaatttaagacatctcatccaaatgaggcgcaccacacttctttgttg gcaaactg
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: 1922 Transcript exons: 25141867-25142102,25142236-25143073,25143148-25143995 TTTGGATTGCACTTGTCAGAGTAAAAGGGCTAAGGACACTATGCTAATTTAAGACATCTCATCC AAATGAGGCGCACCACACTTCTTTGTTGGCAAACTGAAATCAGATAGCATTCTGGTAGCCACTA AACCTACAGGGATGTTTCTTGTGTGTTTTGAAGCCATGTGCCCCTGTTTTGGTTCAAGAAGGAA GGATGGGAGCGAAGACCCTGTTCTTGGAAGGGATGGAAATTCCTTGAATTCTTCTGAGCTGAGG TCAATGTCTGATAGAGTTCCTCCAAGCCCTCTTCGAGTACCTGCAAGTCCATCTAGATTTTCAT TGTCTTCATCACCAAGTAGAAATGAGCCATTGAACCTGAGTCTTGAACAAGTTATTAAACTGAC ACATAACTTTGCACCAGACCTGATGATTGGTGAAGGTTATTTTGGAAAGGTCTACAGAGCACAG CTGCGAGATGGCCACATTGTGGCAATTAAAAGGGCAAAAATGGTAGGTTTTATTTTTTATTTTT ATTTTTTTAATAAAAAGCAGTGTTGGCGCAATGATAGTGGCTGTCAACAAGCAGCTATACTAGA GATTTCTCTATTTAGAATGACTGAGGTGTTTTTTTTCAAGTAGTCTCGCTGGTTGATCCATTTT TGTGTAGATCAGTACGGTAATGAAACAGTAATGCACTGGTAAAGCATGTACTCACATTGCATTC TTTGCACCAGTAGTTGTGGATAGTTATTATAATTTGGTGTTTTTCACCGCTTGATCTTGTTGGT CACTAGTCAAATTTCTTTTGCAATTTATATTTATTCAAAAGGTCCTGATAAAGTATTAAAGTTG CTGATAGAAACTCTGCTTCCTACATGTGATTTTTCTTACAAGTGAATCGCAGTTTTCATCCGGT TTCTTTATGCAGGAACATTTTGCCTCTTTACGGGCCGAATTCAGTAATGAAATTGCATTACTAA AAAAAATTGAACACAGGAATTTGGTCCAATTACTTGGTTATATCGACAAAAGAAATGAACGAAT CGTCATAACTGAGTATGTTCCAAACGGCACTCTTAGGGAGCATCTAGATGGTCAACGTGGGCTT GTTTTAAGCTTTAATCAGCGGCTTGAAATAGCTATAGATGTTGCTCATGGGTTAACTTATTTGC ATCTATATGCAGGTATGCTTTGTCACATGTTTCTGTTGCTGAGCATAAAAACAGTTTAAAAAAA CAACTGACTGTTATTTTTATTTTTATTTTTATACCAAGTCATGCATCGGGGTATTGTCACTAAG TAATGCAAGAACTGTAAACCAGTATTTTAACTATATTTTCCCCCTCTAAAGGTTGGTCCATTGG CTCATAATCTGCTAATAAATGCTAGTATCAGATATCCTGACTGTAATGTTCTGTAGTTCGGAAA TTGTTTGTGGCTGTGCATCAATAAAGGTTGTGAAATGAGCCTAACAACCAAGTTGAATAAACCA TGAAAATTAGCCATGTAATCAGATGTGTATCTGATTTTAATTCTTTGATCTTCAAGCTTTAAAG TAGCTTACAGAGATTCTAGTTTGACTATTCCTATTGGCAATTTGCATATGTATTTTATTTATTT GTTCTGTACTTTTATGCTTTTAGAGAAGCCCATAATACACAGGGATGTGAAGTCATCAAACATT CTACTAAATGAAGGCTTCAGGGCCAAAGTGGCCGACTTTGGATTTGCAAGGACTGGTCCTACAG AGCCAGACCAGTCACAGATTCAGACTGATGTGAGAGGAACAGCTGGCTATGTAGATCCAGAGTA TCTCAGGACAAACCATCTGACAGTCAAGAGTGATGTATTCTCTTATGGAGTTTTGCTCCTGGAA ATTCTTTCTGGTCGTCGTCCTATTGAGGTCAGGAGAGCTGCAAGAGAAAGGATCACCGTGAGAT GG
Genomic sequence	TTTGGATTGCACTTGTCAGAGTAAAAGGGCTAAGGACACTATGCTAATTTAAGACATCTCATCC AAATGAGGCGCACCACACTTCTTTGTTGGCAAACTGAAATCAGATAGCATTCTGGTAGCCACTA AACCTACAGGGATGTTTCTTGTGTGTTTTGAAGCCATGTGCCCCTGTTTTGGTTCAAGAAGGAA GGATGGGAGCGAAGACCCTGTTCTTGGAAGGGATGGAAATTCCTGTAAGTTAAATAGCAAGCTT TCATCTATTGGTGATCTAATCTGTTAACACAATGAAACAATGTAGATGTCACGTTTGGAAGTAT AAATGACCATCATGAATTGTGACACATTCCTTCATCCTTGTTTTTCCAGTGAATTCTTCTGAGC TGAGGTCAATGTCTGATAGAGTTCCTCCAAGCCCTCTTCGAGTACCTGCAAGTCCATCTAGATT TTCATTGTCTTCATCACCAAGTAGAAATGAGCCATTGAACCTGAGTCTTGAACAAGTTATTAAA CTGACACATAACTTTGCACCAGACCTGATGATTGGTGAAGGTTATTTTGGAAAGGTCTACAGAG CACAGCTGCGAGATGGCCACATTGTGGCAATTAAAAGGGCAAAAATGGTAGGTTTTATTTTTTA TTTTTATTTTTTTAATAAAAAGCAGTGTTGGCGCAATGATAGTGGCTGTCAACAAGCAGCTATA CTAGAGATTTCTCTATTTAGAATGACTGAGGTGTTTTTTTTCAAGTAGTCTCGCTGGTTGATCC ATTTTTGTGTAGATCAGTACGGTAATGAAACAGTAATGCACTGGTAAAGCATGTACTCACATTG CATTCTTTGCACCAGTAGTTGTGGATAGTTATTATAATTTGGTGTTTTTCACCGCTTGATCTTG TTGGTCACTAGTCAAATTTCTTTTGCAATTTATATTTATTCAAAAGGTCCTGATAAAGTATTAA AGTTGCTGATAGAAACTCTGCTTCCTACATGTGATTTTTCTTACAAGTGAATCGCAGTTTTCAT CCGGTTTCTTTATGCAGGAACATTTTGCCTCTTTACGGGCCGAATTCAGTAATGAAATTGCATT ACTAAAAAAAATTGAACACAGGAATTTGGTCCAATTACTTGGTTATATCGACAAAAGAAATGAA CGAATCGTCATAACTGAGTATGTTCCAAACGGCACTCTTAGGGAGCATCTAGATGGTAAACTGC ATACTAAGATTCTCTTTTGTTGAATTCCATATAGAACAATCAGTAATTTTCAAATTATCTTTCA GGTCAACGTGGGCTTGTTTTAAGCTTTAATCAGCGGCTTGAAATAGCTATAGATGTTGCTCATG GGTTAACTTATTTGCATCTATATGCAGGTATGCTTTGTCACATGTTTCTGTTGCTGAGCATAAA AACAGTTTAAAAAAACAACTGACTGTTATTTTTATTTTTATTTTTATACCAAGTCATGCATCGG GGTATTGTCACTAAGTAATGCAAGAACTGTAAACCAGTATTTTAACTATATTTTCCCCCTCTAA AGGTTGGTCCATTGGCTCATAATCTGCTAATAAATGCTAGTATCAGATATCCTGACTGTAATGT TCTGTAGTTCGGAAATTGTTTGTGGCTGTGCATCAATAAAGGTTGTGAAATGAGCCTAACAACC AAGTTGAATAAACCATGAAAATTAGCCATGTAATCAGATGTGTATCTGATTTTAATTCTTTGAT CTTCAAGCTTTAAAGTAGCTTACAGAGATTCTAGTTTGACTATTCCTATTGGCAATTTGCATAT GTATTTTATTTATTTGTTCTGTACTTTTATGCTTTTAGAGAAGCCCATAATACACAGGGATGTG AAGTCATCAAACATTCTACTAAATGAAGGCTTCAGGGCCAAAGTGGCCGACTTTGGATTTGCAA GGACTGGTCCTACAGAGCCAGACCAGTCACAGATTCAGACTGATGTGAGAGGAACAGCTGGCTA TGTAGATCCAGAGTATCTCAGGACAAACCATCTGACAGTCAAGAGTGATGTATTCTCTTATGGA GTTTTGCTCCTGGAAATTCTTTCTGGTCGTCGTCCTATTGAGGTCAGGAGAGCTGCAAGAGAAA GGATCACCGTGAGATGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.130412173

Conservation Information
Conserved circRNAs	NA
PMCS	0.130412173

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25143658-25141887(+)
						
						Potential amino acid sequence
						
							MYFIYLFCTFMLLEKPIIHRDVKSSNILLNEGFRAKVADFGFARTGPTEPDQSQIQTDVRGTAG
YVDPEYLRTNHLTVKSDVFSYGVLLLEILSGRRPIEVRRAARERITVRWFGLHLSE*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25143658-25141887(+)
Potential amino acid sequence	MYFIYLFCTFMLLEKPIIHRDVKSSNILLNEGFRAKVADFGFARTGPTEPDQSQIQTDVRGTAG YVDPEYLRTNHLTVKSDVFSYGVLLLEILSGRRPIEVRRAARERITVRWFGLHLSE*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0503600_circ_g.2

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