Plant Circular RNA Database

Detail information of Os09g0516600_circ_g.10

			
						 General Information
					
						CircRNA Name
						Os09g0516600_circ_g.10
					
						ID in PlantcircBase
						osa_circ_039860
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 20125581-20126756  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0516600						
					
						Parent gene annotation
						
							Glyoxalase II. (Os09t0516600-01);Glyoxalase II. (Os09t0516600-02
)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os09g0516600_circ_g.7 Os09g0516600_circ_g.8 Os09g0516600_circ_g.9 						
					
						Support reads
						2
					
						Tissues
						shoot
					
						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
						Os09t0516600-01:2
Os09t0516600-02:2

General Information
CircRNA Name	Os09g0516600_circ_g.10
ID in PlantcircBase	osa_circ_039860
Alias	NA
Organism	Oryza sativa
Position	chr9: 20125581-20126756 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0516600
Parent gene annotation	Glyoxalase II. (Os09t0516600-01);Glyoxalase II. (Os09t0516600-02 )
Parent gene strand	-
Alternative splicing	Os09g0516600_circ_g.7 Os09g0516600_circ_g.8 Os09g0516600_circ_g.9
Support reads	2
Tissues	shoot
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	Os09t0516600-01:2 Os09t0516600-02:2

			
						 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  
						
							TCCTCAGAGGCATGACGAGCAGCGTGCCGATTCCGTACAGCAGCGGCTTGCCAAGCCATTCCTT
GCGCACGCTTGGCAGCAACGACGGCTGCCCTCTGATctttgcaccatattttgccttcagttcc
aagttgccaccagtatggtcatagtgatgatgggtgttcagtatgtaggtcaagttctggtttc
ttttttct

									
								

					

						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: 390
Transcript exons: 20125581-20125784,20126571-20126756
CTTTGCACCATATTTTGCCTTCAGTTCCAAGTTGCCACCAGTATGGTCATAGTGATGATGGGTG
TTCAGTATGTAGGTCAAGTTCTGGTTTCTTTTTTCTAGTGCATTTATGATTGGCGTTGCTTCAG
AAGGGTCCACAACTCCAACTGTTCCAGTATCAACATCATGTAGGATGTAAGCATAGTTATCTTG
AAGGCAGGGTACGAGCTCAATTTGCAGCGACGACGAGACGCTGGTCATGTTGCAGAGGAACCGC
CCAGCGCCAAACATCCGTCCCACCCCGTGCAGCGTCCTCAGAGGCATGACGAGCAGCGTGCCGA
TTCCGTACAGCAGCGGCTTGCCAAGCCATTCCTTGCGCACGCTTGGCAGCAACGACGGCTGCCC
TCTGAT
						
					

						Genomic sequence
						
							CTTTGCACCATATTTTGCCTTCAGTTCCAAGTTGCCACCAGTATGGTCATAGTGATGATGGGTG
TTCAGTATGTAGGTCAAGTTCTGGTTTCTTTTTTCTAGTGCATTTATGATTGGCGTTGCTTCAG
AAGGGTCCACAACTCCAACTGTTCCAGTATCAACATCATGTAGGATGTAAGCATAGTTATCTTG
AAGGCAGGGTACCTACACAAGAAGCATAAACATTGTTGGCAACAAATACTATAGATAATTCCAA
TGTAGCTATCCCCAATAACCCTTTTATGCGAAGCAAGGAAAGCATAAGGAGGGTTGGTGATAGA
GAGGGTCTGTCTATCCAAAATAAAGTTAGATCTGATCCAGTGTTTTGAGTTGGGATGCTACGCT
TAAGAACCAGTATGTCTGGAAGAAACTATGAACAAGTGTTCAGGAATAAAGTAAAAAAGAGTGC
AAAATCATATAGACGACTAAAGTATGCTTGATAGGTCACAGAAAATGATACAATTTAATGTGTT
GAACATATATCACATTCATGCAGAAGAATCGAGAGCAGAAAGAAAAAAAAAACAGAACAAAGCA
ACAACAAAAAGGTGGAAGAACAATTAGGGAAGCTTCTTTATGTGAGCATGGCCACTTTCTTATT
GAGAACGCCCCAAAGTTTTTATCCCAAAACCAATGCCACCAGCAACACCATCCAGTTGCAACAA
ATTCTTCACATCTAGGTTTGATTAGTCGCTGTGGAAAAAATTAGTGTTGTCTGTTGAATCGAAT
CCTGCCCTCCAAATATCTTTTATGCTTATGCAGCAATCAGATTTTCTTTTCAACTGATGAGCAA
ACATGTGCAGCACGAAGTATCATAACAATTAATTGATTGCAATAACAATAATATCAACTCTCAG
GATGATACTCACAATCCACAAGCCCAATCAAGTTGCAATAACAATTCACTGACAGGGAGAATAA
CAACATAATAAAATATCTCAGGATACTCACGAGCTCAATTTGCAGCGACGACGAGACGCTGGTC
ATGTTGCAGAGGAACCGCCCAGCGCCAAACATCCGTCCCACCCCGTGCAGCGTCCTCAGAGGCA
TGACGAGCAGCGTGCCGATTCCGTACAGCAGCGGCTTGCCAAGCCATTCCTTGCGCACGCTTGG
CAGCAACGACGGCTGCCCTCTGAT
						
					

			
		

Sequences
Splice junction sequence	TCCTCAGAGGCATGACGAGCAGCGTGCCGATTCCGTACAGCAGCGGCTTGCCAAGCCATTCCTT GCGCACGCTTGGCAGCAACGACGGCTGCCCTCTGATctttgcaccatattttgccttcagttcc aagttgccaccagtatggtcatagtgatgatgggtgttcagtatgtaggtcaagttctggtttc ttttttct
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: 390 Transcript exons: 20125581-20125784,20126571-20126756 CTTTGCACCATATTTTGCCTTCAGTTCCAAGTTGCCACCAGTATGGTCATAGTGATGATGGGTG TTCAGTATGTAGGTCAAGTTCTGGTTTCTTTTTTCTAGTGCATTTATGATTGGCGTTGCTTCAG AAGGGTCCACAACTCCAACTGTTCCAGTATCAACATCATGTAGGATGTAAGCATAGTTATCTTG AAGGCAGGGTACGAGCTCAATTTGCAGCGACGACGAGACGCTGGTCATGTTGCAGAGGAACCGC CCAGCGCCAAACATCCGTCCCACCCCGTGCAGCGTCCTCAGAGGCATGACGAGCAGCGTGCCGA TTCCGTACAGCAGCGGCTTGCCAAGCCATTCCTTGCGCACGCTTGGCAGCAACGACGGCTGCCC TCTGAT
Genomic sequence	CTTTGCACCATATTTTGCCTTCAGTTCCAAGTTGCCACCAGTATGGTCATAGTGATGATGGGTG TTCAGTATGTAGGTCAAGTTCTGGTTTCTTTTTTCTAGTGCATTTATGATTGGCGTTGCTTCAG AAGGGTCCACAACTCCAACTGTTCCAGTATCAACATCATGTAGGATGTAAGCATAGTTATCTTG AAGGCAGGGTACCTACACAAGAAGCATAAACATTGTTGGCAACAAATACTATAGATAATTCCAA TGTAGCTATCCCCAATAACCCTTTTATGCGAAGCAAGGAAAGCATAAGGAGGGTTGGTGATAGA GAGGGTCTGTCTATCCAAAATAAAGTTAGATCTGATCCAGTGTTTTGAGTTGGGATGCTACGCT TAAGAACCAGTATGTCTGGAAGAAACTATGAACAAGTGTTCAGGAATAAAGTAAAAAAGAGTGC AAAATCATATAGACGACTAAAGTATGCTTGATAGGTCACAGAAAATGATACAATTTAATGTGTT GAACATATATCACATTCATGCAGAAGAATCGAGAGCAGAAAGAAAAAAAAAACAGAACAAAGCA ACAACAAAAAGGTGGAAGAACAATTAGGGAAGCTTCTTTATGTGAGCATGGCCACTTTCTTATT GAGAACGCCCCAAAGTTTTTATCCCAAAACCAATGCCACCAGCAACACCATCCAGTTGCAACAA ATTCTTCACATCTAGGTTTGATTAGTCGCTGTGGAAAAAATTAGTGTTGTCTGTTGAATCGAAT CCTGCCCTCCAAATATCTTTTATGCTTATGCAGCAATCAGATTTTCTTTTCAACTGATGAGCAA ACATGTGCAGCACGAAGTATCATAACAATTAATTGATTGCAATAACAATAATATCAACTCTCAG GATGATACTCACAATCCACAAGCCCAATCAAGTTGCAATAACAATTCACTGACAGGGAGAATAA CAACATAATAAAATATCTCAGGATACTCACGAGCTCAATTTGCAGCGACGACGAGACGCTGGTC ATGTTGCAGAGGAACCGCCCAGCGCCAAACATCCGTCCCACCCCGTGCAGCGTCCTCAGAGGCA TGACGAGCAGCGTGCCGATTCCGTACAGCAGCGGCTTGCCAAGCCATTCCTTGCGCACGCTTGG CAGCAACGACGGCTGCCCTCTGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.251394508

Conservation Information
Conserved circRNAs	NA
PMCS	0.251394508

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20126606-20125629(+)
20126671-20125583(-)
20125593-20126662(-)
						
						Potential amino acid sequence
						
							MLQRNRPAPNIRPTPCSVLRGMTSSVPIPYSSGLPSHSLRTLGSNDGCPLIFAPYFAFSSKLPP
VWS*(+)
MPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDPSEATPI
INALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAKIRGQPSLLPSVRKEWLGKPLLYGIGTL
LVMPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDPSEAT
PIINALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAKIRGQPSLLPSVRKEWLGKPLLYGIG
TLLVMPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDPSE
ATPIINALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAKIRGQPSLLPSVRKEWLGKPLLYG
IGTLLVMPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDP
SEATPIINALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAK(-)
MVQRSEGSRRCCQACARNGLASRCCTESARCSSCL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20126606-20125629(+) 20126671-20125583(-) 20125593-20126662(-)
Potential amino acid sequence	MLQRNRPAPNIRPTPCSVLRGMTSSVPIPYSSGLPSHSLRTLGSNDGCPLIFAPYFAFSSKLPP VWS(+) MPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDPSEATPI INALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAKIRGQPSLLPSVRKEWLGKPLLYGIGTL LVMPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDPSEAT PIINALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAKIRGQPSLLPSVRKEWLGKPLLYGIG TLLVMPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDPSE ATPIINALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAKIRGQPSLLPSVRKEWLGKPLLYG IGTLLVMPLRTLHGVGRMFGAGRFLCNMTSVSSSLQIELVPCLQDNYAYILHDVDTGTVGVVDP SEATPIINALEKRNQNLTYILNTHHHYDHTGGNLELKAKYGAK(-) MVQRSEGSRRCCQACARNGLASRCCTESARCSSCL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0516600_circ_g.10

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