Plant Circular RNA Database

Detail information of Os09g0123300_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os09g0123300_circ_g.4
					
						ID in PlantcircBase
						osa_circ_038464
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 1806424-1809962  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os09g0123300						
					
						Parent gene annotation
						
							Similar to Calmodulin-binding receptor-like kinase. (Os09t012330
0-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0123300_circ_g.2 Os09g0123300_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						pistil
					
						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
						Os09t0123300-01:4

General Information
CircRNA Name	Os09g0123300_circ_g.4
ID in PlantcircBase	osa_circ_038464
Alias	NA
Organism	Oryza sativa
Position	chr9: 1806424-1809962 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os09g0123300
Parent gene annotation	Similar to Calmodulin-binding receptor-like kinase. (Os09t012330 0-01)
Parent gene strand	+
Alternative splicing	Os09g0123300_circ_g.2 Os09g0123300_circ_g.3
Support reads	1
Tissues	pistil
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	Os09t0123300-01:4

			
						 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  
						
							CGACGTCTTCTCCTTTGGCATACTGCTTGTGGAAATTCTCTCTGCTCGCCGACCGGTAGAACTG
AAGCGGGCTGCTGAAGAGAGAATAACTATCAGATGGtcgaatcgattgcatccttggatgtaag
cacgtcatctgagaaggttccaccaactccacaccgaatacccccaagtccatctagattcgca
caatctcc

									
								

					

						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
						
							TCGAATCGATTGCATCCTTGGATGTAAGCACGTCATCTGAGAAGGTTCCACCAACTCCACACCG
AATACCCCCAAGTCCATCTAGATTCGCACAATCTCCACAAATTGCTCGAGTTGGATCTGTGAAC
TTAACTGTGCAGCAGATTCTGAGGGCTACTCAGAATTTCTCACCTTCATTTAAGTTAGGTGAAG
GAGGATTTGGGACAGTCTACAGAGCTGTATTGCCAGATGGCCAGGTGGTTGCAGTAAAGAGAGC
CAAAAAGGTAATTCCATCAGCTCACTCAATCTGTGATTTTACCTTCTTTTTTTTTTTTTTACCT
CTAATCAATTTGTTGATTCATCATCAATCATGTTGATTGTAATGTATTATCCCAGTTTGATTTA
GATTATGAATGGATTATTGCGCAGATTATCTACTCGATTATAGTGATAAATTAAATATTTTAAG
AAATAAATTTAACAAATGGTTTGAAATAAGTGGTCTAGGCAATGCGGTAGAAGAATTTTAAAGA
AACTGTGTTTTCCGAAGCGTGGAGCAAATGATCTGGTGAATAAGCTGAAAAGAACAGGGCCAAT
GCGTAAAGTACACTAGCGGCCCTCTTACAGTGTCAGTCATGCCACTAAACTTTTAAATTGCAGA
TTTAGGTTCTTAAACTTGTTTATCATAACTCTCTAGAGAGCGATGTGATATGCCAACTTAGAGC
CGACATGGTGTGTGGGAACACATAAGCTATGTGTGAGCTTGGTATAGATGGGATATATGCATAT
ATTCCCTTCTACACTGCTCATGTCATCTTGTATGTCACGTCAGCTCCAAGTTAGCATGCCACAT
AGGCTCTTGAAGAGGGTATGGGCACATTTGGACTCATGATGGTACGTTAAACAACTATAAAGGC
CTAAATCTGCAATTTGAAAGTGTAGGGACCTGGATGACACTATTCGGCAAGTTTAAGGACCACT
GGTACACGTTGCTCCTTTTATATCACTATGTTGGGGTTAATTAGAATATCTATGGGTGAATACA
CTGCTCTTAGGATTTGGATTAAGTTACTCCCTCAGGTAAAAAATGATGTTTGATTTTTTTTTTC
GTGGTCCTCAAGGTGCCTTACCCATAATTTTATATGAGAATAAATTTATATAATATTGTAAGTG
TTTACACCCAAATTTGGCACCTAGGTTCAAATTAAGGAATTATTGCCAAGATTTGGAAAAATTG
CCGGTTTCCTCCACAGGGCCGGTCAGACCGCCGTATGTTGGCCGGTCAGACCGTTGCTTGAGGG
CCGGTCTGACCGGCGGTGCGTGCCGCCGGTCAGACCGGCTGAGTCCGAGCCCGAGTCTGTTTTT
CGTCGGGTCTCGGGTTTCCTTGCTCGGGAAGGCATGTTTCGGGTTTCCATTGGTTTCTACCCCG
AGTTGGACGTGGAGGACTTGTAGGAGGCAAGACCAACCCCTATCTAAGGGACAAGGCCGGTTTG
ATCGAGATATTTCTCTTCCTCAAACACAATCGAATCGTTCTTTTATCTTTACTTTAGCCATGTT
TTCTACTTTACTCTAGTTTTAGTTCATCTTTGTCGATTTGCGCCGTAAATCGTCTGCCGTCGCT
CGAGAGTGCAATTACCCCTTTGTAGGTTTGTCCCGTAAACCTTCCGTTTGCCCACGAGACGGGC
AGTTATCCTCATATCGATCTAAATCAGCTTAGAGGCTGATTTTGATCTCTAAATCGGCTCCGCT
GGCCGGTTTAGCTTTTTTTTCTACAAAACCCATCTTGATTTGTCTTTTGGCTAGATTGGGGTGG
TTGGCGATTCCATATCACCGCAAGGCGTTTAGGTGTCCCGATCGTGATTGTCTTCTTGTCAAAA
AAAAGTTGCCAACAATAAGTTTATGATGTTATGAAATTACATTTCAGGATAAATCTACGTACCA
TTTTTATGTTTTCAAACTTAGTACTTTATTAGAAGTCGCTGATAGTCAGATCCTATCCAAAACA
TCAAGTATTTATGACCAGACGAAGTATTTGGTTTACTGCCTGCTAATGGGTTTGACTATTTTTT
GTGCACAGGATCAATTCGCAGGTCCCAGAGATGAGTTTAGCAATGAAGTAGAATTGCTTGCTAA
GATTGACCACCGGAATTTGGTGAGGTTGCTGGGATTTACTGATAAGGGACATGAACGTATCATT
ATCACTGAGTATGTTCCAAATGGCACTCTGAGGGAGCATCTTGATGGTACATTGCACTTTCTGA
TTTATTCTCTTCATTGCCATTTGTGTGTTTCCAAATTTCCATATTAATAAATATTTCTGCATTC
TGCAGGCCAATATGGAAGAACCCTGGATTTTAATCAGCGTCTCGAAATCGCAATTGATGTTGCA
CATGCACTGACTTATCTTCATCTATATGCTGGTAAGCCATCTCTGTTTTTCCTTGGATCAATAT
TGATGTGATGCGCTCATCTATACCTTCTATAGAGATGTGCCTGCCAGCACAACTCTAATGCCCA
TCGGACTACTAAATCACCAGCACCATTAAGTTCCTTGTGTAGTGAGCATTCCTTTTTGGCCATC
TCGAGTTCTCTCCACAGTGCGGGTCGATCATCATGCCCTGTGTAGCAAAGAAGATGACCTATTC
TCTCTCCCTTTATTTATTTCTATCACATGCAATCTGAATATGCAAGGAAATTTATTTTTATGAA
TTTTGCGAAGTCCATACACATTTTCTACCACATCAGATGCCGAAGTGGCAAACCACCTTGAAGA
CCCCTCTAAAGGAGTTATTTAAATGTTTTTGCATAGATCAGAAGTTTCCTGGGATGGTTTATAG
TTTAGAGGATCTATTAGACTTTTTCCTTGTTAATTTGGTTGCATAATTTCTATTTTGAAATAAC
ACTAGTGCCAATTTTCTATATTTGTATTTGAGTAAATTTCAGAAAGCTACAACTATTTTGTCAA
AACTATCAGTATGGTTTAGCTAAGCATTTCAGAGAACTGCAACAATAGCATACGATTTTATCAA
AAAGCTGTAACTTTATATCTCTACAATTTTGGCCCCACCTATCATACACATGACGTACACATGC
TTTATGCAAATCGGGCCCACATGCCATACACACATAAGGGAGAAAATTTCATATTGATGAAATC
ATTTGCTATTGCTGCGGTTTTATGAAATTCACACTTTTTATTTTGATGAAGTTTGATTTTAATA
ATACTGTATTGCTATCTGATAATTTCTCCGATGTGAACAGAGAAGACAATAATTCATCGGGATG
TGAAGTCATCAAACATCCTGCTGACAGAGAGCTACCGGGCCAAGGTGTCTGACTTTGGATTTGC
AAGAAGTGGCCCCAGTGACACAGAAAAGACACACATCTCAACAAAAGTAAAAGGAACCGCTGGC
TACCTTGATCCTGAGTATCTGAGAACATACCAGTTGACTCCTAAGAGCGACGTCTTCTCCTTTG
GCATACTGCTTGTGGAAATTCTCTCTGCTCGCCGACCGGTAGAACTGAAGCGGGCTGCTGAAGA
GAGAATAACTATCAGATGG
						
					

			
		

Sequences
Splice junction sequence	CGACGTCTTCTCCTTTGGCATACTGCTTGTGGAAATTCTCTCTGCTCGCCGACCGGTAGAACTG AAGCGGGCTGCTGAAGAGAGAATAACTATCAGATGGtcgaatcgattgcatccttggatgtaag cacgtcatctgagaaggttccaccaactccacaccgaatacccccaagtccatctagattcgca caatctcc
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	TCGAATCGATTGCATCCTTGGATGTAAGCACGTCATCTGAGAAGGTTCCACCAACTCCACACCG AATACCCCCAAGTCCATCTAGATTCGCACAATCTCCACAAATTGCTCGAGTTGGATCTGTGAAC TTAACTGTGCAGCAGATTCTGAGGGCTACTCAGAATTTCTCACCTTCATTTAAGTTAGGTGAAG GAGGATTTGGGACAGTCTACAGAGCTGTATTGCCAGATGGCCAGGTGGTTGCAGTAAAGAGAGC CAAAAAGGTAATTCCATCAGCTCACTCAATCTGTGATTTTACCTTCTTTTTTTTTTTTTTACCT CTAATCAATTTGTTGATTCATCATCAATCATGTTGATTGTAATGTATTATCCCAGTTTGATTTA GATTATGAATGGATTATTGCGCAGATTATCTACTCGATTATAGTGATAAATTAAATATTTTAAG AAATAAATTTAACAAATGGTTTGAAATAAGTGGTCTAGGCAATGCGGTAGAAGAATTTTAAAGA AACTGTGTTTTCCGAAGCGTGGAGCAAATGATCTGGTGAATAAGCTGAAAAGAACAGGGCCAAT GCGTAAAGTACACTAGCGGCCCTCTTACAGTGTCAGTCATGCCACTAAACTTTTAAATTGCAGA TTTAGGTTCTTAAACTTGTTTATCATAACTCTCTAGAGAGCGATGTGATATGCCAACTTAGAGC CGACATGGTGTGTGGGAACACATAAGCTATGTGTGAGCTTGGTATAGATGGGATATATGCATAT ATTCCCTTCTACACTGCTCATGTCATCTTGTATGTCACGTCAGCTCCAAGTTAGCATGCCACAT AGGCTCTTGAAGAGGGTATGGGCACATTTGGACTCATGATGGTACGTTAAACAACTATAAAGGC CTAAATCTGCAATTTGAAAGTGTAGGGACCTGGATGACACTATTCGGCAAGTTTAAGGACCACT GGTACACGTTGCTCCTTTTATATCACTATGTTGGGGTTAATTAGAATATCTATGGGTGAATACA CTGCTCTTAGGATTTGGATTAAGTTACTCCCTCAGGTAAAAAATGATGTTTGATTTTTTTTTTC GTGGTCCTCAAGGTGCCTTACCCATAATTTTATATGAGAATAAATTTATATAATATTGTAAGTG TTTACACCCAAATTTGGCACCTAGGTTCAAATTAAGGAATTATTGCCAAGATTTGGAAAAATTG CCGGTTTCCTCCACAGGGCCGGTCAGACCGCCGTATGTTGGCCGGTCAGACCGTTGCTTGAGGG CCGGTCTGACCGGCGGTGCGTGCCGCCGGTCAGACCGGCTGAGTCCGAGCCCGAGTCTGTTTTT CGTCGGGTCTCGGGTTTCCTTGCTCGGGAAGGCATGTTTCGGGTTTCCATTGGTTTCTACCCCG AGTTGGACGTGGAGGACTTGTAGGAGGCAAGACCAACCCCTATCTAAGGGACAAGGCCGGTTTG ATCGAGATATTTCTCTTCCTCAAACACAATCGAATCGTTCTTTTATCTTTACTTTAGCCATGTT TTCTACTTTACTCTAGTTTTAGTTCATCTTTGTCGATTTGCGCCGTAAATCGTCTGCCGTCGCT CGAGAGTGCAATTACCCCTTTGTAGGTTTGTCCCGTAAACCTTCCGTTTGCCCACGAGACGGGC AGTTATCCTCATATCGATCTAAATCAGCTTAGAGGCTGATTTTGATCTCTAAATCGGCTCCGCT GGCCGGTTTAGCTTTTTTTTCTACAAAACCCATCTTGATTTGTCTTTTGGCTAGATTGGGGTGG TTGGCGATTCCATATCACCGCAAGGCGTTTAGGTGTCCCGATCGTGATTGTCTTCTTGTCAAAA AAAAGTTGCCAACAATAAGTTTATGATGTTATGAAATTACATTTCAGGATAAATCTACGTACCA TTTTTATGTTTTCAAACTTAGTACTTTATTAGAAGTCGCTGATAGTCAGATCCTATCCAAAACA TCAAGTATTTATGACCAGACGAAGTATTTGGTTTACTGCCTGCTAATGGGTTTGACTATTTTTT GTGCACAGGATCAATTCGCAGGTCCCAGAGATGAGTTTAGCAATGAAGTAGAATTGCTTGCTAA GATTGACCACCGGAATTTGGTGAGGTTGCTGGGATTTACTGATAAGGGACATGAACGTATCATT ATCACTGAGTATGTTCCAAATGGCACTCTGAGGGAGCATCTTGATGGTACATTGCACTTTCTGA TTTATTCTCTTCATTGCCATTTGTGTGTTTCCAAATTTCCATATTAATAAATATTTCTGCATTC TGCAGGCCAATATGGAAGAACCCTGGATTTTAATCAGCGTCTCGAAATCGCAATTGATGTTGCA CATGCACTGACTTATCTTCATCTATATGCTGGTAAGCCATCTCTGTTTTTCCTTGGATCAATAT TGATGTGATGCGCTCATCTATACCTTCTATAGAGATGTGCCTGCCAGCACAACTCTAATGCCCA TCGGACTACTAAATCACCAGCACCATTAAGTTCCTTGTGTAGTGAGCATTCCTTTTTGGCCATC TCGAGTTCTCTCCACAGTGCGGGTCGATCATCATGCCCTGTGTAGCAAAGAAGATGACCTATTC TCTCTCCCTTTATTTATTTCTATCACATGCAATCTGAATATGCAAGGAAATTTATTTTTATGAA TTTTGCGAAGTCCATACACATTTTCTACCACATCAGATGCCGAAGTGGCAAACCACCTTGAAGA CCCCTCTAAAGGAGTTATTTAAATGTTTTTGCATAGATCAGAAGTTTCCTGGGATGGTTTATAG TTTAGAGGATCTATTAGACTTTTTCCTTGTTAATTTGGTTGCATAATTTCTATTTTGAAATAAC ACTAGTGCCAATTTTCTATATTTGTATTTGAGTAAATTTCAGAAAGCTACAACTATTTTGTCAA AACTATCAGTATGGTTTAGCTAAGCATTTCAGAGAACTGCAACAATAGCATACGATTTTATCAA AAAGCTGTAACTTTATATCTCTACAATTTTGGCCCCACCTATCATACACATGACGTACACATGC TTTATGCAAATCGGGCCCACATGCCATACACACATAAGGGAGAAAATTTCATATTGATGAAATC ATTTGCTATTGCTGCGGTTTTATGAAATTCACACTTTTTATTTTGATGAAGTTTGATTTTAATA ATACTGTATTGCTATCTGATAATTTCTCCGATGTGAACAGAGAAGACAATAATTCATCGGGATG TGAAGTCATCAAACATCCTGCTGACAGAGAGCTACCGGGCCAAGGTGTCTGACTTTGGATTTGC AAGAAGTGGCCCCAGTGACACAGAAAAGACACACATCTCAACAAAAGTAAAAGGAACCGCTGGC TACCTTGATCCTGAGTATCTGAGAACATACCAGTTGACTCCTAAGAGCGACGTCTTCTCCTTTG GCATACTGCTTGTGGAAATTCTCTCTGCTCGCCGACCGGTAGAACTGAAGCGGGCTGCTGAAGA GAGAATAACTATCAGATGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.217385154

Conservation Information
Conserved circRNAs	NA
PMCS	0.217385154

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1809960-1806447(+)
1806506-1809791(-)
						
						Potential amino acid sequence
						
							MVESIASLDVSTSSEKVPPTPHRIPPSPSRFAQSPQIARVGSVNLTVQQILRATQNFSPSFKLG
EGGFGTVYRAVLPDGQVVAVKRAKKDQFAGPRDEFSNEVELLAKIDHRNLVRLLGFTDKGHERI
IITEYVPNGTLREHLDGQYGRTLDFNQRLEIAIDVAHALTYLHLYAEKTIIHRDVKSSNILLTE
SYRAKVSDFGFARSGPSDTEKTHISTKVKGTAGYLDPEYLRTYQLTPKSDVFSFGILLVEILSA
RRPVELKRAAEERITIRWSNRLHPWM*(+)
MDLGVFGVELVEPSQMTCLHPRMQSIRPSDSYSLFSSPLQFYRSASRENFHKQYAKGEDVALRS
QLVCSQILRIKVASGSFYFC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1809960-1806447(+) 1806506-1809791(-)
Potential amino acid sequence	MVESIASLDVSTSSEKVPPTPHRIPPSPSRFAQSPQIARVGSVNLTVQQILRATQNFSPSFKLG EGGFGTVYRAVLPDGQVVAVKRAKKDQFAGPRDEFSNEVELLAKIDHRNLVRLLGFTDKGHERI IITEYVPNGTLREHLDGQYGRTLDFNQRLEIAIDVAHALTYLHLYAEKTIIHRDVKSSNILLTE SYRAKVSDFGFARSGPSDTEKTHISTKVKGTAGYLDPEYLRTYQLTPKSDVFSFGILLVEILSA RRPVELKRAAEERITIRWSNRLHPWM(+) MDLGVFGVELVEPSQMTCLHPRMQSIRPSDSYSLFSSPLQFYRSASRENFHKQYAKGEDVALRS QLVCSQILRIKVASGSFYFC(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0123300_circ_g.4

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