Plant Circular RNA Database

Detail information of Os05g0316050_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0316050_circ_g.3
					
						ID in PlantcircBase
						osa_circ_027405
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 14589380-14591479  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ie-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0316050						
					
						Parent gene annotation
						
							Hypothetical protein. (Os05t0316050-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0316050_circ_g.2 Os05g0316050_circ_g.4 Os05g0316050_circ_g.5 Os05g0316050_circ_g.6 						
					
						Support reads
						2
					
						Tissues
						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
						Os05t0316000-01:4
Os05t0316000-01:4
Os05t0316050-00:3

General Information
CircRNA Name	Os05g0316050_circ_g.3
ID in PlantcircBase	osa_circ_027405
Alias	NA
Organism	Oryza sativa
Position	chr5: 14589380-14591479 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ie-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0316050
Parent gene annotation	Hypothetical protein. (Os05t0316050-00)
Parent gene strand	+
Alternative splicing	Os05g0316050_circ_g.2 Os05g0316050_circ_g.4 Os05g0316050_circ_g.5 Os05g0316050_circ_g.6
Support reads	2
Tissues	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	Os05t0316000-01:4 Os05t0316000-01:4 Os05t0316050-00:3

			
						 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  
						
							GTCTGAGAAGATCATCATTCCTGTACCACCAATAGACACCAAACACATGAATCATGAAGATTAC
TGTAATCCCGACAAGCACAGCAATTTTTCTCTCGCCctgttctgctgtcgcataagacccataa
tgcacatctttacgtgacaatgctttcactgcagccaagaatgactgaacctggaacatacagt
caacaatg

									
								

					

						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
						
							CTGTTCTGCTGTCGCATAAGACCCATAATGCACATCTTTACGTGACAATGCTTTCACTGCAGCC
AAGAATGACTGAACCTGGAACATACAGTCAACAATGAGAAAATAAGCATGCATGGAATGGAAAA
AATATATATTTTATAGGTTCACAGCACTAATTTTGTATGTGAGCTACAGTAACTAGTAAAAGTA
GTACCTTTTCAACTACTGAAGTTAACTTGAAGGTCAGGTACAGTCCAGTGGTTAAAGATGAGAA
AAGACTCCCATATTCCTTGTTCAGAAAGAAACGGTACCAAACAGGAGTTGGCAACAAGGCACGA
TATAGGAGCAGAAGGTATTCCACAAGGGTTAGCATTTGACCCTAGCAAAACAGAAAGTTTGAGC
CTCAGAAGTCAGAACCAACTACTAAGCTTGCAACTATAAAAGGATCTAAAATAAGAAATAAGCT
AGAATTCAAGATAATGAGACATGCACCTTTAGAACCAAAATAAAATAACAAAGATAAAGAAAGT
AACAATGGAAAAACTAGTCACTTCATGCAAAAGACCCTCATAAGTTTTTTTTCCAAAATAAGTT
ATATCCTAGTGTTACTTGCGAACACATGGCACATGAAGCCAACAGAACTATAGGAATACATGAT
GTATACTTGACTATTTGGTAGTGCATCTACTAAACTATTTTTCAAACTGTTTCAGAATTATGGA
GAAAAAACTACCATTCTTAGCTAAGTATTTGGGATATAGAACCCCTTTCTAGTGGACACATTTG
AAGATGTCTAAGCATTGAGCTGCTACACAGACTAATTCAGTAGATCAAAACTTAAGGGGATAAA
AATAATTGTATAGTCATAGACATGCAGTTATTAAATAAAGATAGCCCAGCATAGAAATACAATA
TCATTCAGCATTCAGTTATTATGATTAGTTTCTAGTCAATATATACTCAGTATTGGATATGTGG
AAATAAAGATAATTCAGTGTGGGAGAAAGGGTGCTGTCACAAAAGCACCCACATATACTAAGTG
TTGGTACTTTTGAATTTTGATGGCTGCGATCACTTCACTAGTTTGGCTAGATCTCTACAATCTC
TAACCAGCATAGTAATCACTGCATTGATTATCATTAGAAGTTAGGTAGAACCAACAACTAAAGG
CAAGATGCTATAAACATGATGATAAAATCACAAAATAAATTTATGACAATTAGAAAAAAATGTC
ACCTGCTTACGGTAGTTACGACCTCTGCTATTCTTATAGTACATAAGTAGCATGCACTTAATGG
CCATTGCTGCCTGGCGAACCATTGTATCTGCAAGTGGCATTTGGTTAGAAATGCCAACTGCAAC
ATGAAATAAATTGTGCTAACAGATAACTTAAAATGTTTTTCCCTGCAATCCTAGAAAACATACT
TCTTTAAGTAAATGAAGATAGTGCCATACAGCTAATATGAACCTTTTTTGGCTAAAACAAATCT
ATGTTGCCTGTGTAATTTTAGCAGTTTGAAACTATGAATTGAACACCATAAATTTTGTGCCATT
CAGGCATTCAAAAATTTCTAGCACATTTAATGATCTAAGTGTACAAATAAATTTATTAAATGAT
TAGTTTTCATCACACATTTAACTGAAGAGCATCTTTAAATTTGCTGGGAATTCGAAAGGCTAAT
ACAAACCGAGAAACTAATGAGTTCAACACAAAGCCTTGAATTAAAAAGCAGCAGAAAGTGAAGT
AAAAAAAGGTCATTTTGAATGATTTTTCATGATATGAAAAACGAGACAAAATTGCTCATTGTAC
ATACATTTACAAAGGGCAATAAATTTTAATCTAGCAGGTCAATAAAGGTACTTCTATGTATATG
GTCAGAGTTCACTATCAGATAATGGAGAAATGCATGCGAGCAAATTCAAGAAACCCTTTAAGGA
AGCATCAGTACCATTGACCATGATGATAAAAATCGCATGCCAAAATGGCGGTATTTCTTTTGGC
GGAAGCATGAACAGAGGTCTGAGAAGATCATCATTCCTGTACCACCAATAGACACCAAACACAT
GAATCATGAAGATTACTGTAATCCCGACAAGCACAGCAATTTTTCTCTCGCC
						
					

			
		

Sequences
Splice junction sequence	GTCTGAGAAGATCATCATTCCTGTACCACCAATAGACACCAAACACATGAATCATGAAGATTAC TGTAATCCCGACAAGCACAGCAATTTTTCTCTCGCCctgttctgctgtcgcataagacccataa tgcacatctttacgtgacaatgctttcactgcagccaagaatgactgaacctggaacatacagt caacaatg
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	CTGTTCTGCTGTCGCATAAGACCCATAATGCACATCTTTACGTGACAATGCTTTCACTGCAGCC AAGAATGACTGAACCTGGAACATACAGTCAACAATGAGAAAATAAGCATGCATGGAATGGAAAA AATATATATTTTATAGGTTCACAGCACTAATTTTGTATGTGAGCTACAGTAACTAGTAAAAGTA GTACCTTTTCAACTACTGAAGTTAACTTGAAGGTCAGGTACAGTCCAGTGGTTAAAGATGAGAA AAGACTCCCATATTCCTTGTTCAGAAAGAAACGGTACCAAACAGGAGTTGGCAACAAGGCACGA TATAGGAGCAGAAGGTATTCCACAAGGGTTAGCATTTGACCCTAGCAAAACAGAAAGTTTGAGC CTCAGAAGTCAGAACCAACTACTAAGCTTGCAACTATAAAAGGATCTAAAATAAGAAATAAGCT AGAATTCAAGATAATGAGACATGCACCTTTAGAACCAAAATAAAATAACAAAGATAAAGAAAGT AACAATGGAAAAACTAGTCACTTCATGCAAAAGACCCTCATAAGTTTTTTTTCCAAAATAAGTT ATATCCTAGTGTTACTTGCGAACACATGGCACATGAAGCCAACAGAACTATAGGAATACATGAT GTATACTTGACTATTTGGTAGTGCATCTACTAAACTATTTTTCAAACTGTTTCAGAATTATGGA GAAAAAACTACCATTCTTAGCTAAGTATTTGGGATATAGAACCCCTTTCTAGTGGACACATTTG AAGATGTCTAAGCATTGAGCTGCTACACAGACTAATTCAGTAGATCAAAACTTAAGGGGATAAA AATAATTGTATAGTCATAGACATGCAGTTATTAAATAAAGATAGCCCAGCATAGAAATACAATA TCATTCAGCATTCAGTTATTATGATTAGTTTCTAGTCAATATATACTCAGTATTGGATATGTGG AAATAAAGATAATTCAGTGTGGGAGAAAGGGTGCTGTCACAAAAGCACCCACATATACTAAGTG TTGGTACTTTTGAATTTTGATGGCTGCGATCACTTCACTAGTTTGGCTAGATCTCTACAATCTC TAACCAGCATAGTAATCACTGCATTGATTATCATTAGAAGTTAGGTAGAACCAACAACTAAAGG CAAGATGCTATAAACATGATGATAAAATCACAAAATAAATTTATGACAATTAGAAAAAAATGTC ACCTGCTTACGGTAGTTACGACCTCTGCTATTCTTATAGTACATAAGTAGCATGCACTTAATGG CCATTGCTGCCTGGCGAACCATTGTATCTGCAAGTGGCATTTGGTTAGAAATGCCAACTGCAAC ATGAAATAAATTGTGCTAACAGATAACTTAAAATGTTTTTCCCTGCAATCCTAGAAAACATACT TCTTTAAGTAAATGAAGATAGTGCCATACAGCTAATATGAACCTTTTTTGGCTAAAACAAATCT ATGTTGCCTGTGTAATTTTAGCAGTTTGAAACTATGAATTGAACACCATAAATTTTGTGCCATT CAGGCATTCAAAAATTTCTAGCACATTTAATGATCTAAGTGTACAAATAAATTTATTAAATGAT TAGTTTTCATCACACATTTAACTGAAGAGCATCTTTAAATTTGCTGGGAATTCGAAAGGCTAAT ACAAACCGAGAAACTAATGAGTTCAACACAAAGCCTTGAATTAAAAAGCAGCAGAAAGTGAAGT AAAAAAAGGTCATTTTGAATGATTTTTCATGATATGAAAAACGAGACAAAATTGCTCATTGTAC ATACATTTACAAAGGGCAATAAATTTTAATCTAGCAGGTCAATAAAGGTACTTCTATGTATATG GTCAGAGTTCACTATCAGATAATGGAGAAATGCATGCGAGCAAATTCAAGAAACCCTTTAAGGA AGCATCAGTACCATTGACCATGATGATAAAAATCGCATGCCAAAATGGCGGTATTTCTTTTGGC GGAAGCATGAACAGAGGTCTGAGAAGATCATCATTCCTGTACCACCAATAGACACCAAACACAT GAATCATGAAGATTACTGTAATCCCGACAAGCACAGCAATTTTTCTCTCGCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.115412024

Conservation Information
Conserved circRNAs	NA
PMCS	0.115412024

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14591337-14589421(+)
14591434-14589395(+)
14591436-14589382(-)
14589416-14591442(-)
						
						Potential amino acid sequence
						
							MPKWRYFFWRKHEQRSEKIIIPVPPIDTKHMNHEDYCNPDKHSNFSLALFCCRIRPIMHIFT*(
+)
MKITVIPTSTAIFLSPCSAVA*(+)
MIHVFGVYWWYRNDDLLRPLFMLPPKEIPPFWHAIFIIMVNDTMVRQAAMAIKCMLLMYYKNSR
GRNYRKQGQMLTLVEYLLLLYRALLPTPVWYRFFLNKEYGSLFSSLTTGLYLTFKLTSVVEKVQ
SFLAAVKALSRKDVHYGSYATAEQGERKIAVLVGITVIFMIHVFGVYWWYRNDDLLRPLFMLPP
KEIPPFWHAIFIIMVNDTMVRQAAMAIKCMLLMYYKNSRGRNYRKQGQMLTLVEYLLLLYRALL
PTPVWYRFFLNKEYGSLFSSLTTGLYLTFKLTSVVEKVQSFLAAVKALSRKDVHYGSYATAEQG
ERKIAVLVGITVIFMIHVFGVYWWYRNDDLLRPLFMLPPKEIPPFWHAIFIIMVNDTMVRQAAM
AIKCMLLMYYKNSRGRNYRKQGQMLTLVEYLLLLYRALLPTPVWYRFFLNKEYGSLFSSLTTGL
YLTFKLTSVVEKVQSFLAAVKALSRKDVHYGSYATAEQGERKIAVLVGITVIFMIHVFGVYWWY
RNDDLLRPLFMLPPKEIPPFWHAIFIIMVNDTMVRQAAMAIKCMLLMYYKNSRGRNYRKQGQML
TLVEYLLLLYRALLPTPVWYRFFLNKEYGSLFSSLTTGLYLTFKLTSVVEKVQSFLAAVKALSR
KDVHYGSYATAEQ(-)
MCIMGLMRQQNRAREKLLCLSGLQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14591337-14589421(+) 14591434-14589395(+) 14591436-14589382(-) 14589416-14591442(-)
Potential amino acid sequence	MPKWRYFFWRKHEQRSEKIIIPVPPIDTKHMNHEDYCNPDKHSNFSLALFCCRIRPIMHIFT( +) MKITVIPTSTAIFLSPCSAVA(+) MIHVFGVYWWYRNDDLLRPLFMLPPKEIPPFWHAIFIIMVNDTMVRQAAMAIKCMLLMYYKNSR GRNYRKQGQMLTLVEYLLLLYRALLPTPVWYRFFLNKEYGSLFSSLTTGLYLTFKLTSVVEKVQ SFLAAVKALSRKDVHYGSYATAEQGERKIAVLVGITVIFMIHVFGVYWWYRNDDLLRPLFMLPP KEIPPFWHAIFIIMVNDTMVRQAAMAIKCMLLMYYKNSRGRNYRKQGQMLTLVEYLLLLYRALL PTPVWYRFFLNKEYGSLFSSLTTGLYLTFKLTSVVEKVQSFLAAVKALSRKDVHYGSYATAEQG ERKIAVLVGITVIFMIHVFGVYWWYRNDDLLRPLFMLPPKEIPPFWHAIFIIMVNDTMVRQAAM AIKCMLLMYYKNSRGRNYRKQGQMLTLVEYLLLLYRALLPTPVWYRFFLNKEYGSLFSSLTTGL YLTFKLTSVVEKVQSFLAAVKALSRKDVHYGSYATAEQGERKIAVLVGITVIFMIHVFGVYWWY RNDDLLRPLFMLPPKEIPPFWHAIFIIMVNDTMVRQAAMAIKCMLLMYYKNSRGRNYRKQGQML TLVEYLLLLYRALLPTPVWYRFFLNKEYGSLFSSLTTGLYLTFKLTSVVEKVQSFLAAVKALSR KDVHYGSYATAEQ(-) MCIMGLMRQQNRAREKLLCLSGLQ*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0316050_circ_g.3

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