Plant Circular RNA Database

Detail information of Os09g0115500_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os09g0115500_circ_g.9
					
						ID in PlantcircBase
						osa_circ_038434
					
						Alias
						Os_ciR3217
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 1223602-1223852  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os09g0115500						
					
						Parent gene annotation
						
							Proteinase inhibitor I3, Kunitz legume domain containing protein
. (Os09t0115500-01);Proteinase inhibitor I3, Kunitz legume domai
n containing protein. (Os09t0115500-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0115500_circ_g.1 Os09g0115500_circ_g.2 Os09g0115500_circ_g.3 Os09g0115500_circ_g.4 Os09g0115500_circ_g.5 Os09g0115500_circ_g.6 Os09g0115500_circ_g.7 Os09g0115500_circ_g.8 						
					
						Support reads
						4/1
					
						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
						Os09t0115500-01:2
Os09t0115500-02:2

General Information
CircRNA Name	Os09g0115500_circ_g.9
ID in PlantcircBase	osa_circ_038434
Alias	Os_ciR3217
Organism	Oryza sativa
Position	chr9: 1223602-1223852 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os09g0115500
Parent gene annotation	Proteinase inhibitor I3, Kunitz legume domain containing protein . (Os09t0115500-01);Proteinase inhibitor I3, Kunitz legume domai n containing protein. (Os09t0115500-02)
Parent gene strand	-
Alternative splicing	Os09g0115500_circ_g.1 Os09g0115500_circ_g.2 Os09g0115500_circ_g.3 Os09g0115500_circ_g.4 Os09g0115500_circ_g.5 Os09g0115500_circ_g.6 Os09g0115500_circ_g.7 Os09g0115500_circ_g.8
Support reads	4/1
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	Os09t0115500-01:2 Os09t0115500-02:2

			
						 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  
						
							AGAAGGTAGTACCTTCATCAACCGAGGTTGCAGGTGTAACGACATGGAGATTAGGCCTTTTGGT
CATGAAGTCACCAACTGTGTAGACTCCGTTGTTGTGcaactttccggtgtcatcaacaacaggg
aaaccagagatcttgtgttgcaccagcgtctcgagagctgtaaaaacgaacagaataataagtt
ggcgattt

						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: 153
Transcript exons: 1223602-1223666,1223765-1223852
CAACTTTCCGGTGTCATCAACAACAGGGAAACCAGAGATCTTGTGTTGCACCAGCGTCTCGAGA
GCTTCATCAACCGAGGTTGCAGGTGTAACGACATGGAGATTAGGCCTTTTGGTCATGAAGTCAC
CAACTGTGTAGACTCCGTTGTTGTG
						
						Genomic sequence
						
							CAACTTTCCGGTGTCATCAACAACAGGGAAACCAGAGATCTTGTGTTGCACCAGCGTCTCGAGA
GCTGTAAAAACGAACAGAATAATAAGTTGGCGATTTGGTTTAGCAGCAAGCATAGTTAGGACAT
ACTTCATATTATAGAAGTAGAGAAGAAGGTAGTACCTTCATCAACCGAGGTTGCAGGTGTAACG
ACATGGAGATTAGGCCTTTTGGTCATGAAGTCACCAACTGTGTAGACTCCGTTGTTGTG

Sequences
Splice junction sequence	AGAAGGTAGTACCTTCATCAACCGAGGTTGCAGGTGTAACGACATGGAGATTAGGCCTTTTGGT CATGAAGTCACCAACTGTGTAGACTCCGTTGTTGTGcaactttccggtgtcatcaacaacaggg aaaccagagatcttgtgttgcaccagcgtctcgagagctgtaaaaacgaacagaataataagtt ggcgattt
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: 153 Transcript exons: 1223602-1223666,1223765-1223852 CAACTTTCCGGTGTCATCAACAACAGGGAAACCAGAGATCTTGTGTTGCACCAGCGTCTCGAGA GCTTCATCAACCGAGGTTGCAGGTGTAACGACATGGAGATTAGGCCTTTTGGTCATGAAGTCAC CAACTGTGTAGACTCCGTTGTTGTG
Genomic sequence	CAACTTTCCGGTGTCATCAACAACAGGGAAACCAGAGATCTTGTGTTGCACCAGCGTCTCGAGA GCTGTAAAAACGAACAGAATAATAAGTTGGCGATTTGGTTTAGCAGCAAGCATAGTTAGGACAT ACTTCATATTATAGAAGTAGAGAAGAAGGTAGTACCTTCATCAACCGAGGTTGCAGGTGTAACG ACATGGAGATTAGGCCTTTTGGTCATGAAGTCACCAACTGTGTAGACTCCGTTGTTGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018937 						
					
						PMCS
						0.200278884

Conservation Information
Conserved circRNAs	osi_circ_018937
PMCS	0.200278884

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1223797-1223849(+)
1223821-1223604(-)
1223799-1223818(-)
						
						Potential amino acid sequence
						
							MEIRPFGHEVTNCVDSVVVQLSGVINNRETRDLVLHQRLESFINRGCRCNDMEIRPFGHEVTNC
VDSVVVQLSGVINNRETRDLVLHQRLESFINRGCRCNDMEIRPFGHEVTNCVDSVVVQLSGVIN
NRETRDLVLHQRLESFINRGCRCNDMEIRPFGHEVTNCVDSVVV(+)
MTKRPNLHVVTPATSVDEALETLVQHKISGFPVVDDTGKLHNNGVYTVGDFMTKRPNLHVVTPA
TSVDEALETLVQHKISGFPVVDDTGKLHNNGVYTVGDFMTKRPNLHVVTPATSVDEALETLVQH
KISGFPVVDDTGKLHNNGVYTVGDFMTKRPNLHVVTPATSVDEALETLVQHKISGFPVVDDTGK
L(-)
MSLHLQPRLMKLSRRWCNTRSLVSLLLMTPESCTTTESTQLVTS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1223797-1223849(+) 1223821-1223604(-) 1223799-1223818(-)
Potential amino acid sequence	MEIRPFGHEVTNCVDSVVVQLSGVINNRETRDLVLHQRLESFINRGCRCNDMEIRPFGHEVTNC VDSVVVQLSGVINNRETRDLVLHQRLESFINRGCRCNDMEIRPFGHEVTNCVDSVVVQLSGVIN NRETRDLVLHQRLESFINRGCRCNDMEIRPFGHEVTNCVDSVVV(+) MTKRPNLHVVTPATSVDEALETLVQHKISGFPVVDDTGKLHNNGVYTVGDFMTKRPNLHVVTPA TSVDEALETLVQHKISGFPVVDDTGKLHNNGVYTVGDFMTKRPNLHVVTPATSVDEALETLVQH KISGFPVVDDTGKLHNNGVYTVGDFMTKRPNLHVVTPATSVDEALETLVQHKISGFPVVDDTGK L(-) MSLHLQPRLMKLSRRWCNTRSLVSLLLMTPESCTTTESTQLVTS*(-)
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 Os09g0115500_circ_g.9

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