Plant Circular RNA Database

Detail information of Os04g0503550_circ_g.8

			
						 General Information
					
						CircRNA Name
						Os04g0503550_circ_g.8
					
						ID in PlantcircBase
						osa_circ_024488
					
						Alias
						Os_ciR9446
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 25131339-25133691  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os04g0503500						
					
						Parent gene annotation
						
							Leucine-rich repeat, cysteine-containing subtype containing prot
ein. (Os04t0503500-01);Leucine-rich repeat, cysteine-containing 
subtype containing protein. (Os04t0503500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0503550_circ_g.4 Os04g0503550_circ_g.5 Os04g0503550_circ_g.6 Os04g0503550_circ_g.7 Os04g0503550_circ_g.9 Os04g0503550_circ_g.10 Os04g0503550_circ_g.11 						
					
						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
						Os04t0503550-00:7
Os04t0503500-01:7
Os04t0503550-00:7
Os04t0503500-02:7

General Information
CircRNA Name	Os04g0503550_circ_g.8
ID in PlantcircBase	osa_circ_024488
Alias	Os_ciR9446
Organism	Oryza sativa
Position	chr4: 25131339-25133691 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os04g0503500
Parent gene annotation	Leucine-rich repeat, cysteine-containing subtype containing prot ein. (Os04t0503500-01);Leucine-rich repeat, cysteine-containing subtype containing protein. (Os04t0503500-02)
Parent gene strand	-
Alternative splicing	Os04g0503550_circ_g.4 Os04g0503550_circ_g.5 Os04g0503550_circ_g.6 Os04g0503550_circ_g.7 Os04g0503550_circ_g.9 Os04g0503550_circ_g.10 Os04g0503550_circ_g.11
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	Os04t0503550-00:7 Os04t0503500-01:7 Os04t0503550-00:7 Os04t0503500-02:7

			
						 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  
						
							AAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGTCATCCATTCCCAGCACGATTA
CGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATTctgaaataacctccaaacaagcagcagt
tactgcacagccctccaggtttaggtgagctagcttcgatagacctgtaaagaacaaatacaaa
atatgaaa

									
								

					

						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: 1062
Transcript exons: 25131339-25131410,25131580-25131651,25131744-25131818,25
132094-25132240,25132368-25132575,25133131-25133259,2513
3333-25133691
CTGAAATAACCTCCAAACAAGCAGCAGTTACTGCACAGCCCTCCAGGTTTAGGTGAGCTAGCTT
CGATAGACCTCTTAGATAAGAAACACCAAGATCACTTATTTTGCAGCAAGAAAGTTGAAGCTCT
CTCAAATTTGTAAGATCTGATAAATGTTTCATATCAGAATCTGTGATGCCATTACAATACCTCA
AATTTAGCTTTTCCAGTTTTCTCAAGCCTTTTAAATGAACAAGTCCACCATGAATCTTCGGACA
TCGCTCAAGGTCCAAGCTACCCAAATTAACCATGTTTGCAAAGGCTTTAGCTCCTTCAGCAGTA
ACAGCAGAACATTTTTTAAAGCTCAGGGATGTCACATTTGAGAGGCCTGACAATGTTTTAAGTC
CATGCTCCGATATCTGATCACAGTAATTGCATGACAAACTTTGCAAGTTGATGCAATCCTTGAG
TTGATTCAGTCCACCATCAGTCACATCAGAGCAAGAGATATCAACAGATAACAATGATTGCCCT
TGAGAAGCCGCTACTTCCATCCAAGCATCCCTCACCCCAGGGTAGTCTGCCAAACAGATGTCCT
GCAATGCACAATCACGAAAAGCTCCAAGCAACTCTTCAGTGAGAATGTTCCACTCCACCAGTTC
ATTAAATACCTGCTGACTAAGATCTCTAGGCAGCAGCGAGAAATCAGAATACTTCCCAATATCC
TCGCGGACTTTGGCCACACAGAGCTCCATTAGCGATGGGCACCGCACAGGCACTGGTCCCTGCA
CCTTCCTGTGTACATCAGAGCCGCTGCGGGGCAAGGTGTGCAGTAGCCACTTGAAGCTGCTGCT
CTTGGAGAACCTTGCACTGTAGAGATCTTCCTCATCAACAAGCAGCTGGCCTCTCTTCCTAGAG
CAAGCACTTCCCATGGCGACGATGCGAGCACCGATCACAAACCAATCACTTCTTCTTGATGGAC
TAAAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGTCATCCATTCCCAGCACGAT
TACGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATT
Transcript length: 249
Transcript exons: 25131339-25131402,25133507-25133691
CTGAAATAACCTCCAAACAAGCAGCAGTTACTGCACAGCCCTCCAGGTTTAGGTGAGCTAGCTT
CTGGCCTCTCTTCCTAGAGCAAGCACTTCCCATGGCGACGATGCGAGCACCGATCACAAACCAA
TCACTTCTTCTTGATGGACTAAAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGT
CATCCATTCCCAGCACGATTACGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATT
						
					

						Genomic sequence
						
							CTGAAATAACCTCCAAACAAGCAGCAGTTACTGCACAGCCCTCCAGGTTTAGGTGAGCTAGCTT
CGATAGACCTGTAAAGAACAAATACAAAATATGAAACAGAGGCTAACTTTAGATGAAACTTCAT
GTCATTATATTAATAGAAACAACGAATTAATCAGAATATTACAGATACAAATGGATGTAGCTTT
AGGTAGATAAGGTTCCACTGGAAAAGGAAGAAATTTATTTCTGGGATACCTCTTAGATAAGAAA
CACCAAGATCACTTATTTTGCAGCAAGAAAGTTGAAGCTCTCTCAAATTTGTAAGATCTACAAG
GAAAAGGGTATTTATTAGACGTGCAGATCAGTATGTGTGATAACATACACTGCTTGACACTAGA
TGGTCAACATAAAGGTGTTACCTGATAAATGTTTCATATCAGAATCTGTGATGCCATTACAATA
CCTCAAATTTAGCTTTTCCAGTTTTCTCAAGCCTGAAAAAGAAAGTTATTATTGGATCTGACAG
AAGTATAATTAAAATGTATTCACGATTGAGTAGCGTTTGAACAAATAGGTAGCATGCCAGTCTT
CCCTGTATTTATTACAAAGAAAGATATATAAAAGCTCTGGATGATAAATATATCTCTGTTTCAT
TGGGGTGTAGGGTGCGGGGAACACATGGTAAATGATAAAATTAGATCATGCATTTATAATAAAT
AAGTTGGCTGTGGTTACATTGTGATGATATATTAATGAAATAGCAGGAAACCTTTTAAATGAAC
AAGTCCACCATGAATCTTCGGACATCGCTCAAGGTCCAAGCTACCCAAATTAACCATGTTTGCA
AAGGCTTTAGCTCCTTCAGCAGTAACAGCAGAACATTTTTTAAAGCTCAGGGATGTCACATTTG
AGAGGCCTGCAGAATTAAAAAGCAATACCATAAATGACAGGAACAGAATATCTAGTGATCAGGA
ACATTGACACCACTCTTATCATAGAGATGGAAGAAAACTCAACTCTCAGGCTATCAGAAAATCA
CTAACCTGACAATGTTTTAAGTCCATGCTCCGATATCTGATCACAGTAATTGCATGACAAACTT
TGCAAGTTGATGCAATCCTTGAGTTGATTCAGTCCACCATCAGTCACATCAGAGCAAGAGATAT
CAACAGATAACAATGATTGCCCTTGAGAAGCCGCTACTTCCATCCAAGCATCCCTCACCCCAGG
GTAGTCTGCCAAACAGATGTCCTGAGACCAAGTAGAAGAATAGCATAGGAGGTCAATATCTAGT
CTCAGAGTAACTTATCCCAGAAACAAGAAATACTCCAAATTTGGTCCTTTCTTTATGTGGCACA
CAAGTAAAGCGATTGCTTGGCTTGCTTGTAGCAGGAAGATAGAAGCATCATCTGAGTTACACAG
AATAAGATAGCAGCTGTGCACGTGAGCTCAACTGGTCTATTAGTATCAGTACCCAGTGGAGGCT
TCCTTGAGTGGATTTTCCTCAATTGCTTACAGGATAAATTTTACCAACACATTTTAGTTTACTT
TCCTGAGTTAGCTTATAAAAATAAGCTATAAAATCGTTTACAACATAGTAAGAATTGTTCCAAC
AAGATGCCTTTATTCGTTCCCTGATACTACATTGAAAGTTAGAAACTGCTACAAGGGAATGTCA
GGATTGCATTCCATAGAGTTTGCAATAATTCCATATTGATTTTCCTTGTTTAGAATTGAGTCAT
TTTTTTCGCGAACGTGTTTAGAGCTCAGTCATAATTACGTGCCAAACAAGATCAAGCACTTCAC
CTGCAATGCACAATCACGAAAAGCTCCAAGCAACTCTTCAGTGAGAATGTTCCACTCCACCAGT
TCATTAAATACCTGCTGACTAAGATCTCTAGGCAGCAGCGAGAAATCAGAATACTTCCCAATAT
CCTGAAATCACCCCTCATCAAGTCAGGCAACAATACACACAGAAAACTCAATCATCCAAGGCCA
CAAGCACTACCTCGCGGACTTTGGCCACACAGAGCTCCATTAGCGATGGGCACCGCACAGGCAC
TGGTCCCTGCACCTTCCTGTGTACATCAGAGCCGCTGCGGGGCAAGGTGTGCAGTAGCCACTTG
AAGCTGCTGCTCTTGGAGAACCTTGCACTGTAGAGATCTTCCTCATCAACAAGCAGCTGGCCTC
TCTTCCTAGAGCAAGCACTTCCCATGGCGACGATGCGAGCACCGATCACAAACCAATCACTTCT
TCTTGATGGACTAAAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGTCATCCATT
CCCAGCACGATTACGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATT
						
					

			
		

Sequences
Splice junction sequence	AAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGTCATCCATTCCCAGCACGATTA CGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATTctgaaataacctccaaacaagcagcagt tactgcacagccctccaggtttaggtgagctagcttcgatagacctgtaaagaacaaatacaaa atatgaaa
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: 1062 Transcript exons: 25131339-25131410,25131580-25131651,25131744-25131818,25 132094-25132240,25132368-25132575,25133131-25133259,2513 3333-25133691 CTGAAATAACCTCCAAACAAGCAGCAGTTACTGCACAGCCCTCCAGGTTTAGGTGAGCTAGCTT CGATAGACCTCTTAGATAAGAAACACCAAGATCACTTATTTTGCAGCAAGAAAGTTGAAGCTCT CTCAAATTTGTAAGATCTGATAAATGTTTCATATCAGAATCTGTGATGCCATTACAATACCTCA AATTTAGCTTTTCCAGTTTTCTCAAGCCTTTTAAATGAACAAGTCCACCATGAATCTTCGGACA TCGCTCAAGGTCCAAGCTACCCAAATTAACCATGTTTGCAAAGGCTTTAGCTCCTTCAGCAGTA ACAGCAGAACATTTTTTAAAGCTCAGGGATGTCACATTTGAGAGGCCTGACAATGTTTTAAGTC CATGCTCCGATATCTGATCACAGTAATTGCATGACAAACTTTGCAAGTTGATGCAATCCTTGAG TTGATTCAGTCCACCATCAGTCACATCAGAGCAAGAGATATCAACAGATAACAATGATTGCCCT TGAGAAGCCGCTACTTCCATCCAAGCATCCCTCACCCCAGGGTAGTCTGCCAAACAGATGTCCT GCAATGCACAATCACGAAAAGCTCCAAGCAACTCTTCAGTGAGAATGTTCCACTCCACCAGTTC ATTAAATACCTGCTGACTAAGATCTCTAGGCAGCAGCGAGAAATCAGAATACTTCCCAATATCC TCGCGGACTTTGGCCACACAGAGCTCCATTAGCGATGGGCACCGCACAGGCACTGGTCCCTGCA CCTTCCTGTGTACATCAGAGCCGCTGCGGGGCAAGGTGTGCAGTAGCCACTTGAAGCTGCTGCT CTTGGAGAACCTTGCACTGTAGAGATCTTCCTCATCAACAAGCAGCTGGCCTCTCTTCCTAGAG CAAGCACTTCCCATGGCGACGATGCGAGCACCGATCACAAACCAATCACTTCTTCTTGATGGAC TAAAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGTCATCCATTCCCAGCACGAT TACGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATT Transcript length: 249 Transcript exons: 25131339-25131402,25133507-25133691 CTGAAATAACCTCCAAACAAGCAGCAGTTACTGCACAGCCCTCCAGGTTTAGGTGAGCTAGCTT CTGGCCTCTCTTCCTAGAGCAAGCACTTCCCATGGCGACGATGCGAGCACCGATCACAAACCAA TCACTTCTTCTTGATGGACTAAAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGT CATCCATTCCCAGCACGATTACGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATT
Genomic sequence	CTGAAATAACCTCCAAACAAGCAGCAGTTACTGCACAGCCCTCCAGGTTTAGGTGAGCTAGCTT CGATAGACCTGTAAAGAACAAATACAAAATATGAAACAGAGGCTAACTTTAGATGAAACTTCAT GTCATTATATTAATAGAAACAACGAATTAATCAGAATATTACAGATACAAATGGATGTAGCTTT AGGTAGATAAGGTTCCACTGGAAAAGGAAGAAATTTATTTCTGGGATACCTCTTAGATAAGAAA CACCAAGATCACTTATTTTGCAGCAAGAAAGTTGAAGCTCTCTCAAATTTGTAAGATCTACAAG GAAAAGGGTATTTATTAGACGTGCAGATCAGTATGTGTGATAACATACACTGCTTGACACTAGA TGGTCAACATAAAGGTGTTACCTGATAAATGTTTCATATCAGAATCTGTGATGCCATTACAATA CCTCAAATTTAGCTTTTCCAGTTTTCTCAAGCCTGAAAAAGAAAGTTATTATTGGATCTGACAG AAGTATAATTAAAATGTATTCACGATTGAGTAGCGTTTGAACAAATAGGTAGCATGCCAGTCTT CCCTGTATTTATTACAAAGAAAGATATATAAAAGCTCTGGATGATAAATATATCTCTGTTTCAT TGGGGTGTAGGGTGCGGGGAACACATGGTAAATGATAAAATTAGATCATGCATTTATAATAAAT AAGTTGGCTGTGGTTACATTGTGATGATATATTAATGAAATAGCAGGAAACCTTTTAAATGAAC AAGTCCACCATGAATCTTCGGACATCGCTCAAGGTCCAAGCTACCCAAATTAACCATGTTTGCA AAGGCTTTAGCTCCTTCAGCAGTAACAGCAGAACATTTTTTAAAGCTCAGGGATGTCACATTTG AGAGGCCTGCAGAATTAAAAAGCAATACCATAAATGACAGGAACAGAATATCTAGTGATCAGGA ACATTGACACCACTCTTATCATAGAGATGGAAGAAAACTCAACTCTCAGGCTATCAGAAAATCA CTAACCTGACAATGTTTTAAGTCCATGCTCCGATATCTGATCACAGTAATTGCATGACAAACTT TGCAAGTTGATGCAATCCTTGAGTTGATTCAGTCCACCATCAGTCACATCAGAGCAAGAGATAT CAACAGATAACAATGATTGCCCTTGAGAAGCCGCTACTTCCATCCAAGCATCCCTCACCCCAGG GTAGTCTGCCAAACAGATGTCCTGAGACCAAGTAGAAGAATAGCATAGGAGGTCAATATCTAGT CTCAGAGTAACTTATCCCAGAAACAAGAAATACTCCAAATTTGGTCCTTTCTTTATGTGGCACA CAAGTAAAGCGATTGCTTGGCTTGCTTGTAGCAGGAAGATAGAAGCATCATCTGAGTTACACAG AATAAGATAGCAGCTGTGCACGTGAGCTCAACTGGTCTATTAGTATCAGTACCCAGTGGAGGCT TCCTTGAGTGGATTTTCCTCAATTGCTTACAGGATAAATTTTACCAACACATTTTAGTTTACTT TCCTGAGTTAGCTTATAAAAATAAGCTATAAAATCGTTTACAACATAGTAAGAATTGTTCCAAC AAGATGCCTTTATTCGTTCCCTGATACTACATTGAAAGTTAGAAACTGCTACAAGGGAATGTCA GGATTGCATTCCATAGAGTTTGCAATAATTCCATATTGATTTTCCTTGTTTAGAATTGAGTCAT TTTTTTCGCGAACGTGTTTAGAGCTCAGTCATAATTACGTGCCAAACAAGATCAAGCACTTCAC CTGCAATGCACAATCACGAAAAGCTCCAAGCAACTCTTCAGTGAGAATGTTCCACTCCACCAGT TCATTAAATACCTGCTGACTAAGATCTCTAGGCAGCAGCGAGAAATCAGAATACTTCCCAATAT CCTGAAATCACCCCTCATCAAGTCAGGCAACAATACACACAGAAAACTCAATCATCCAAGGCCA CAAGCACTACCTCGCGGACTTTGGCCACACAGAGCTCCATTAGCGATGGGCACCGCACAGGCAC TGGTCCCTGCACCTTCCTGTGTACATCAGAGCCGCTGCGGGGCAAGGTGTGCAGTAGCCACTTG AAGCTGCTGCTCTTGGAGAACCTTGCACTGTAGAGATCTTCCTCATCAACAAGCAGCTGGCCTC TCTTCCTAGAGCAAGCACTTCCCATGGCGACGATGCGAGCACCGATCACAAACCAATCACTTCT TCTTGATGGACTAAAAAGCGCATATCATTCTAGCTCGTGACTGTGTGATTCTTTGTCATCCATT CCCAGCACGATTACGACTTGGCATAGACTTCGCTCTCTTTGGCCCCATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005588* 						
					
						PMCS
						0.422192457

Conservation Information
Conserved circRNAs	osi_circ_005588*
PMCS	0.422192457

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25133541-25133605(-)
						
						Potential amino acid sequence
						
							MGSACSRKRGQLLVDEEDLYSARFSKSSSFKWLLHTLPRSGSDVHRKVQGPVPVRCPSLMELCV
AKVREDIGKYSDFSLLPRDLSQQVFNELVEWNILTEELLGAFRDCALQDICLADYPGVRDAWME
VAASQGQSLLSVDISCSDVTDGGLNQLKDCINLQSLSCNYCDQISEHGLKTLSGLSNVTSLSFK
KCSAVTAEGAKAFANMVNLGSLDLERCPKIHGGLVHLKGLRKLEKLNLRYCNGITDSDMKHLSD
LTNLRELQLSCCKISDLGVSYLRGLSKLAHLNLEGCAVTAACLEVISEWGQRERSLCQVVIVLG
MDDKESHSHELE*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25133541-25133605(-)
Potential amino acid sequence	MGSACSRKRGQLLVDEEDLYSARFSKSSSFKWLLHTLPRSGSDVHRKVQGPVPVRCPSLMELCV AKVREDIGKYSDFSLLPRDLSQQVFNELVEWNILTEELLGAFRDCALQDICLADYPGVRDAWME VAASQGQSLLSVDISCSDVTDGGLNQLKDCINLQSLSCNYCDQISEHGLKTLSGLSNVTSLSFK KCSAVTAEGAKAFANMVNLGSLDLERCPKIHGGLVHLKGLRKLEKLNLRYCNGITDSDMKHLSD LTNLRELQLSCCKISDLGVSYLRGLSKLAHLNLEGCAVTAACLEVISEWGQRERSLCQVVIVLG MDDKESHSHELE*(-)
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 Os04g0503550_circ_g.8

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