Plant Circular RNA Database

Detail information of Os05g0455500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0455500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_028123
					
						Alias
						Os_ciR9953
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 22375138-22376918  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0455500						
					
						Parent gene annotation
						
							Similar to Delta-1-pyrroline-5-carboxylate synthetase. (Os05t045
5500-01);Similar to Delta 1-pyrroline-5-carboxylate synthetase (
P5CS). (Os05t0455500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0455500_circ_g.1 Os05g0455500_circ_g.2 Os05g0455500_circ_g.4 Os05g0455500_circ_g.5 Os05g0455500_circ_g.6 Os05g0455500_circ_g.7 						
					
						Support reads
						2/2
					
						Tissues
						root/shoot, root
					
						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  
						
							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
						Os05t0455500-01:3
Os05t0455500-02:6

General Information
CircRNA Name	Os05g0455500_circ_g.3
ID in PlantcircBase	osa_circ_028123
Alias	Os_ciR9953
Organism	Oryza sativa
Position	chr5: 22375138-22376918 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0455500
Parent gene annotation	Similar to Delta-1-pyrroline-5-carboxylate synthetase. (Os05t045 5500-01);Similar to Delta 1-pyrroline-5-carboxylate synthetase ( P5CS). (Os05t0455500-02)
Parent gene strand	-
Alternative splicing	Os05g0455500_circ_g.1 Os05g0455500_circ_g.2 Os05g0455500_circ_g.4 Os05g0455500_circ_g.5 Os05g0455500_circ_g.6 Os05g0455500_circ_g.7
Support reads	2/2
Tissues	root/shoot, root
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	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	Os05t0455500-01:3 Os05t0455500-02:6

			
						 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  
						
							TACCAGCATGCCCAAGAACAGGAATCTTAGTTGACGCCTTGATTTGAGAGACAAGCTTATTACT
TCCTCTTGGAATGACAAGATCAATGACATCATCAAGctcagcacccaatccaaaacgagcccca
tcagagaatctcgtacttgcattatgaaatacagcagcactgttcaaattgagaagtagaacag
aacattag

									
								

					

						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
						
							CTCAGCACCCAATCCAAAACGAGCCCCATCAGAGAATCTCGTACTTGCATTATGAAATACAGCA
GCACTGTTCAAATTGAGAAGTAGAACAGAACATTAGTTAAACATCCGTTCATCATAAGTTGACA
GGAAAATAATTGTGCATCAATAGGGAACAAATAATGTAACCATTAAGTAATAAGGGAATTAATG
TTTAAACATACCTATCAACTCTGCGTAGAAAAGTCTCTGCTACCTTATCATCTGTAGTGACGAT
ACAATCTGTATGAGCACTGAAACAGATAGAATATGGAAATTTGGGTTACATTGAATCTCATTTT
TTGTTTAAGAAAACAACTAGTACTATGGGATAAGGGGGAGACAGGAGTCACAACTATTAGGTAC
CTTCCATAACGATGAATATGGTCAATTGCTGATTGAACATCATCAACAAACTCAACAGTGCAGG
CCATAGAACTATACTCATGATGAAATGAAACAGCTTTTGGAAATCCCAGAGCTTTGTGCGCAAT
AGGTCCACCATAAATATTAACTCCTGAAATATACAGCATTATCTAAGAAGCAGGGAGAAAATCA
TGGCCCTGTATATACAAGTAAAAAACAATCCAGTATCCAGAAACATACTACATCTGTGATTATG
TCATGTTACTTTGGTTGCTTTTAGCATCGAAGTAGTTTCTATATACATGCTTGTTAACCAATCA
CAATGTAACCAATCAAACTTGGTTGGAAATTGTTGCCATAAGAGAAGGGTCGCGTTTGTATTCA
TATATTTTCAAGATTTTTTGTTGTTTGTAATGGTATTTATCACCATTAAATCACAGTGGTTGGT
AATTTAAAGTTGCAACTGTTTGTGATGGTATTGAGCAAAATTGCTTCAGAGGGGAGCCGTTTCT
ATAGTATAAGAGAGTAGAAAAACAAACCTTCTGTTTTTAGTGCTACTAATATGTCGTCAAGGCC
TGGACTCTTCATAAGATCCTTATGAACTAGTAAGGTCTCCTGCAGAACATACATGTAAAATAGG
CTGTTATCTGAATATAAAAAATGGCTACATGATGTTCAGAAAAATTATAAGGTGGAATTATCAA
CATGCTGAAAACAGTAGAAGACTATCAAGATATGTAGCTAAATTTTCTTACAAAGGAAAGAGGA
AGTTACTACTTTGTAAGAATAAGCATTATGCAATCACAATATAAGTAGTTATAAATCAATTTAA
ACAATTCAAAAGTGCAGTTATAACTATCATCTATCAATAAAAATAGTTTGCATGAGATAGAAGT
GGAGGGGCTGTAATAATCTCAACAGTACTAAATGCATTTTTCAGATGCCAGAGAAGAATTGCAA
CCAGAGCATCATGGTTAGAAGAGAATTTGAAATTGTCCAAAATATTCAGTGAAAGATACTCCAA
AAAGTAACTGAAACTGTAAAAGCAATCTATTTGAATACTATACACGGTAGCAAACTGGATAGAT
ACCATTGCATTGCAGGCTGCTGGGTAATCAATTTTTGCATCCATTACAATATGTTTTGCCATAT
CCATGTCAGCTGATTTGTCAATATATACGTGGCATATACCATCTGCAGTGGGGAAATATGGAAT
GTCAGAAATAGCAAAAAGAAAAAAAAACTCAACATCCAATAAAGCCATAAGAGTGGTAAGAACT
TAAGTTCAAACAGAATTTACCAGCATGCCCAAGAACAGGAATCTTAGTTGACGCCTTGATTTGA
GAGACAAGCTTATTACTTCCTCTTGGAATGACAAGATCAATGACATCATCAAG
						
					

			
		

Sequences
Splice junction sequence	TACCAGCATGCCCAAGAACAGGAATCTTAGTTGACGCCTTGATTTGAGAGACAAGCTTATTACT TCCTCTTGGAATGACAAGATCAATGACATCATCAAGctcagcacccaatccaaaacgagcccca tcagagaatctcgtacttgcattatgaaatacagcagcactgttcaaattgagaagtagaacag aacattag
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	CTCAGCACCCAATCCAAAACGAGCCCCATCAGAGAATCTCGTACTTGCATTATGAAATACAGCA GCACTGTTCAAATTGAGAAGTAGAACAGAACATTAGTTAAACATCCGTTCATCATAAGTTGACA GGAAAATAATTGTGCATCAATAGGGAACAAATAATGTAACCATTAAGTAATAAGGGAATTAATG TTTAAACATACCTATCAACTCTGCGTAGAAAAGTCTCTGCTACCTTATCATCTGTAGTGACGAT ACAATCTGTATGAGCACTGAAACAGATAGAATATGGAAATTTGGGTTACATTGAATCTCATTTT TTGTTTAAGAAAACAACTAGTACTATGGGATAAGGGGGAGACAGGAGTCACAACTATTAGGTAC CTTCCATAACGATGAATATGGTCAATTGCTGATTGAACATCATCAACAAACTCAACAGTGCAGG CCATAGAACTATACTCATGATGAAATGAAACAGCTTTTGGAAATCCCAGAGCTTTGTGCGCAAT AGGTCCACCATAAATATTAACTCCTGAAATATACAGCATTATCTAAGAAGCAGGGAGAAAATCA TGGCCCTGTATATACAAGTAAAAAACAATCCAGTATCCAGAAACATACTACATCTGTGATTATG TCATGTTACTTTGGTTGCTTTTAGCATCGAAGTAGTTTCTATATACATGCTTGTTAACCAATCA CAATGTAACCAATCAAACTTGGTTGGAAATTGTTGCCATAAGAGAAGGGTCGCGTTTGTATTCA TATATTTTCAAGATTTTTTGTTGTTTGTAATGGTATTTATCACCATTAAATCACAGTGGTTGGT AATTTAAAGTTGCAACTGTTTGTGATGGTATTGAGCAAAATTGCTTCAGAGGGGAGCCGTTTCT ATAGTATAAGAGAGTAGAAAAACAAACCTTCTGTTTTTAGTGCTACTAATATGTCGTCAAGGCC TGGACTCTTCATAAGATCCTTATGAACTAGTAAGGTCTCCTGCAGAACATACATGTAAAATAGG CTGTTATCTGAATATAAAAAATGGCTACATGATGTTCAGAAAAATTATAAGGTGGAATTATCAA CATGCTGAAAACAGTAGAAGACTATCAAGATATGTAGCTAAATTTTCTTACAAAGGAAAGAGGA AGTTACTACTTTGTAAGAATAAGCATTATGCAATCACAATATAAGTAGTTATAAATCAATTTAA ACAATTCAAAAGTGCAGTTATAACTATCATCTATCAATAAAAATAGTTTGCATGAGATAGAAGT GGAGGGGCTGTAATAATCTCAACAGTACTAAATGCATTTTTCAGATGCCAGAGAAGAATTGCAA CCAGAGCATCATGGTTAGAAGAGAATTTGAAATTGTCCAAAATATTCAGTGAAAGATACTCCAA AAAGTAACTGAAACTGTAAAAGCAATCTATTTGAATACTATACACGGTAGCAAACTGGATAGAT ACCATTGCATTGCAGGCTGCTGGGTAATCAATTTTTGCATCCATTACAATATGTTTTGCCATAT CCATGTCAGCTGATTTGTCAATATATACGTGGCATATACCATCTGCAGTGGGGAAATATGGAAT GTCAGAAATAGCAAAAAGAAAAAAAAACTCAACATCCAATAAAGCCATAAGAGTGGTAAGAACT TAAGTTCAAACAGAATTTACCAGCATGCCCAAGAACAGGAATCTTAGTTGACGCCTTGATTTGA GAGACAAGCTTATTACTTCCTCTTGGAATGACAAGATCAATGACATCATCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015548 						
					
						PMCS
						0.144804955

Conservation Information
Conserved circRNAs	osi_circ_015548
PMCS	0.144804955

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22376894-22375189(+)
22376679-22375140(-)
22375189-22376655(-)
						
						Potential amino acid sequence
						
							MTRSMTSSSSAPNPKRAPSENLVLAL*(+)
MDMAKHIVMDAKIDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFP
KAVSFHHEYSSMACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNA
STRFSDGARFGLGAELDDVIDLVIPRGSNKLVSQIKASTKIPVLGHADGICHVYIDKSADMDMA
KHIVMDAKIDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFPKAVS
FHHEYSSMACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNASTRF
SDGARFGLGAELDDVIDLVIPRGSNKLVSQIKASTKIPVLGHADGICHVYIDKSADMDMAKHIV
MDAKIDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFPKAVSFHHE
YSSMACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNASTRFSDGA
RFGLGAELDDVIDLVIPRGSNKLVSQIKASTKIPVLGHADGICHVYIDKSADMDMAKHIVMDAK
IDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFPKAVSFHHEYSSM
ACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNASTRFSDGARFGL
GAE(-)
MQVRDSLMGLVLDWVLSLMMSLILSFQEEVISLSLKSRRQLRFLFLGMLMVYATYILTNQLTWI
WQNIL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22376894-22375189(+) 22376679-22375140(-) 22375189-22376655(-)
Potential amino acid sequence	MTRSMTSSSSAPNPKRAPSENLVLAL(+) MDMAKHIVMDAKIDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFP KAVSFHHEYSSMACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNA STRFSDGARFGLGAELDDVIDLVIPRGSNKLVSQIKASTKIPVLGHADGICHVYIDKSADMDMA KHIVMDAKIDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFPKAVS FHHEYSSMACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNASTRF SDGARFGLGAELDDVIDLVIPRGSNKLVSQIKASTKIPVLGHADGICHVYIDKSADMDMAKHIV MDAKIDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFPKAVSFHHE YSSMACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNASTRFSDGA RFGLGAELDDVIDLVIPRGSNKLVSQIKASTKIPVLGHADGICHVYIDKSADMDMAKHIVMDAK IDYPAACNAMETLLVHKDLMKSPGLDDILVALKTEGVNIYGGPIAHKALGFPKAVSFHHEYSSM ACTVEFVDDVQSAIDHIHRYGSAHTDCIVTTDDKVAETFLRRVDSAAVFHNASTRFSDGARFGL GAE(-) MQVRDSLMGLVLDWVLSLMMSLILSFQEEVISLSLKSRRQLRFLFLGMLMVYATYILTNQLTWI WQNIL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os05g0455500_circ_g.3

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