Plant Circular RNA Database

Detail information of Os09g0268300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0268300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_038675
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 5140146-5140580  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os09g0268300						
					
						Parent gene annotation
						
							Similar to Hexose carrier. (Os09t0268300-01);Similar to Monosacc
haride transporter. (Os09t0268300-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os09g0268300_circ_g.1 						
					
						Support reads
						2
					
						Tissues
						shoot, seed
					
						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  
						
							GT-AG							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
						Os09t0268401-00:1
Os09t0268300-01:1
Os09t0268300-02:1
Os09t0268401-00:1

General Information
CircRNA Name	Os09g0268300_circ_g.2
ID in PlantcircBase	osa_circ_038675
Alias	NA
Organism	Oryza sativa
Position	chr9: 5140146-5140580 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os09g0268300
Parent gene annotation	Similar to Hexose carrier. (Os09t0268300-01);Similar to Monosacc haride transporter. (Os09t0268300-02)
Parent gene strand	+
Alternative splicing	Os09g0268300_circ_g.1
Support reads	2
Tissues	shoot, seed
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	GT-AG 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	Os09t0268401-00:1 Os09t0268300-01:1 Os09t0268300-02:1 Os09t0268401-00:1

			
						 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  
						
							CGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGGCAGTACCGTCCCCAG
CTCGTCATGGCCATCATGATACCCTTCTTCCAACAGgccgtgccgctgtacctgtcggaaatgg
ctcctccgctgcaccgaggagcgttcagcaacggcttccagctctgcgtcggcatcggcgccgt
cactgccc

									
								

					

						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: 222
Transcript exons: 5140146-5140246,5140460-5140580
GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT
TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGGGACATTGTGGCCGCCAATAGCGACAA
GGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGGCAGTACCGTCCCCAGCTCGTC
ATGGCCATCATGATACCCTTCTTCCAACAG
Transcript length: 224
Transcript exons: 5140146-5140276,5140488-5140580
GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT
TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT
CAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGGCAGTACCGTCCCCAGCTCG
TCATGGCCATCATGATACCCTTCTTCCAACAG
Transcript length: 233
Transcript exons: 5140146-5140332,5140535-5140580
GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT
TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT
CAGGCAAGGCTGGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCCCGTC
CCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG
Transcript length: 313
Transcript exons: 5140146-5140231,5140243-5140343,5140455-5140580
GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT
TCCAGCTCTGCGTCGGCATCGGCCCGCCTCACCAACTTCTTCACGCAGAAGATCAGGCAAGGCT
GGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCTCACCCTCGGCCTGGA
GGACATTGTGGCCGCCAATAGCGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACC
CAGCGGCAGTACCGTCCCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG
Transcript length: 435
Transcript exons: 5140146-5140580
GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT
TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT
CAGGCAAGGCTGGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCTCACC
CTCGGCGCGCTCTTCCTCCCGGAGACGCCCAACAGCCTACTGCAGCAAGGCAGAGACAAGCGCA
GAGTTAGGGTGCTTCTCACCAGGATCCGAGGTGTCAGCGACGTGGAGGACGAGCTGGAGGACAT
TGTGGCCGCCAATAGCGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGG
CAGTACCGTCCCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG
						
					

						Genomic sequence
						
							GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT
TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT
CAGGCAAGGCTGGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCTCACC
CTCGGCGCGCTCTTCCTCCCGGAGACGCCCAACAGCCTACTGCAGCAAGGCAGAGACAAGCGCA
GAGTTAGGGTGCTTCTCACCAGGATCCGAGGTGTCAGCGACGTGGAGGACGAGCTGGAGGACAT
TGTGGCCGCCAATAGCGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGG
CAGTACCGTCCCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG
						
					

			
		

Sequences
Splice junction sequence	CGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGGCAGTACCGTCCCCAG CTCGTCATGGCCATCATGATACCCTTCTTCCAACAGgccgtgccgctgtacctgtcggaaatgg ctcctccgctgcaccgaggagcgttcagcaacggcttccagctctgcgtcggcatcggcgccgt cactgccc
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: 222 Transcript exons: 5140146-5140246,5140460-5140580 GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGGGACATTGTGGCCGCCAATAGCGACAA GGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGGCAGTACCGTCCCCAGCTCGTC ATGGCCATCATGATACCCTTCTTCCAACAG Transcript length: 224 Transcript exons: 5140146-5140276,5140488-5140580 GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT CAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGGCAGTACCGTCCCCAGCTCG TCATGGCCATCATGATACCCTTCTTCCAACAG Transcript length: 233 Transcript exons: 5140146-5140332,5140535-5140580 GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT CAGGCAAGGCTGGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCCCGTC CCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG Transcript length: 313 Transcript exons: 5140146-5140231,5140243-5140343,5140455-5140580 GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT TCCAGCTCTGCGTCGGCATCGGCCCGCCTCACCAACTTCTTCACGCAGAAGATCAGGCAAGGCT GGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCTCACCCTCGGCCTGGA GGACATTGTGGCCGCCAATAGCGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACC CAGCGGCAGTACCGTCCCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG Transcript length: 435 Transcript exons: 5140146-5140580 GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT CAGGCAAGGCTGGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCTCACC CTCGGCGCGCTCTTCCTCCCGGAGACGCCCAACAGCCTACTGCAGCAAGGCAGAGACAAGCGCA GAGTTAGGGTGCTTCTCACCAGGATCCGAGGTGTCAGCGACGTGGAGGACGAGCTGGAGGACAT TGTGGCCGCCAATAGCGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGG CAGTACCGTCCCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG
Genomic sequence	GCCGTGCCGCTGTACCTGTCGGAAATGGCTCCTCCGCTGCACCGAGGAGCGTTCAGCAACGGCT TCCAGCTCTGCGTCGGCATCGGCGCCGTCACTGCCCGCCTCACCAACTTCTTCACGCAGAAGAT CAGGCAAGGCTGGGGATGGCGCGTCTCGCTCGCCGTCGCCGCCGTCCCCGGCGGGTTGCTCACC CTCGGCGCGCTCTTCCTCCCGGAGACGCCCAACAGCCTACTGCAGCAAGGCAGAGACAAGCGCA GAGTTAGGGTGCTTCTCACCAGGATCCGAGGTGTCAGCGACGTGGAGGACGAGCTGGAGGACAT TGTGGCCGCCAATAGCGACAAGGCGAACAGCAGCCGCGGCCTGCAGATGATCGTCACCCAGCGG CAGTACCGTCCCCAGCTCGTCATGGCCATCATGATACCCTTCTTCCAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007983* osi_circ_018846 						
					
						PMCS
						0.417917957

Conservation Information
Conserved circRNAs	osi_circ_007983* osi_circ_018846
PMCS	0.417917957

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5140171-5140577(+)
5140563-5140148(-)
						
						Potential amino acid sequence
						
							MAPPLHRGAFSNGFQLCVGIGAVTARLTNFFTQKIRQGWGWRVSLAVAAVPGGLLTLGALFLPE
TPNSLLQQGRDKRRVRVLLTRIRGVSDVEDELEDIVAANSDKANSSRGLQMIVTQRQYRPQLVM
AIMIPFFQQAVPLYLSEMAPPLHRGAFSNGFQLCVGIGAVTARLTNFFTQKIRQGWGWRVSLAV
AAVPGGLLTLGALFLPETPNSLLQQGRDKRRVRVLLTRIRGVSDVEDELEDIVAANSDKANSSR
GLQMIVTQRQYRPQLVMAIMIPFFQQAVPLYLSEMAPPLHRGAFSNGFQLCVGIGAVTARLTNF
FTQKIRQGWGWRVSLAVAAVPGGLLTLGALFLPETPNSLLQQGRDKRRVRVLLTRIRGVSDVED
ELEDIVAANSDKANSSRGLQMIVTQRQYRPQLVMAIMIPFFQQAVPLYLSEMAPPLHRGAFSNG
FQLCVGIGAVTARLTNFFTQKIRQGWGWRVSLAVAAVPGGLLTLGALFLPETPNSLLQQGRDKR
RVRVLLTRIRGVSDVEDELEDIVAANSDKANSSRGLQMIVTQRQYRPQLVMAIMIPFFQQ(+)
MMAMTSWGRYCRWVTIICRPRLLFALSLLAATMSSSSSSTSLTPRILVRSTLTLRLSLPCCSRL
LGVSGRKSAPRVSNPPGTAATASETRHPQPCLIFCVKKLVRRAVTAPMPTQSWKPLLNAPRCSG
GAISDRYSGTACWKKGIMMAMTSWGRYCRWVTIICRPRLLFALSLLAATMSSSSSSTSLTPRIL
VRSTLTLRLSLPCCSRLLGVSGRKSAPRVSNPPGTAATASETRHPQPCLIFCVKKLVRRAVTAP
MPTQSWKPLLNAPRCSGGAISDRYSGTACWKKGIMMAMTSWGRYCRWVTIICRPRLLFALSLLA
ATMSSSSSSTSLTPRILVRSTLTLRLSLPCCSRLLGVSGRKSAPRVSNPPGTAATASETRHPQP
CLIFCVKKLVRRAVTAPMPTQSWKPLLNAPRCSGGAISDRYSGTACWKKGIMMAMTSWGRYCRW
VTIICRPRLLFALSLLAATMSSSSSSTSLTPRILVRSTLTLRLSLPCCSRLLGVSGRKSAPRVS
NPPGTAATASETRHPQPCLIFCVKKLVRRAVTAPMPTQSWKPLLNAPRCSGGAISDRYSGT(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5140171-5140577(+) 5140563-5140148(-)
Potential amino acid sequence	MAPPLHRGAFSNGFQLCVGIGAVTARLTNFFTQKIRQGWGWRVSLAVAAVPGGLLTLGALFLPE TPNSLLQQGRDKRRVRVLLTRIRGVSDVEDELEDIVAANSDKANSSRGLQMIVTQRQYRPQLVM AIMIPFFQQAVPLYLSEMAPPLHRGAFSNGFQLCVGIGAVTARLTNFFTQKIRQGWGWRVSLAV AAVPGGLLTLGALFLPETPNSLLQQGRDKRRVRVLLTRIRGVSDVEDELEDIVAANSDKANSSR GLQMIVTQRQYRPQLVMAIMIPFFQQAVPLYLSEMAPPLHRGAFSNGFQLCVGIGAVTARLTNF FTQKIRQGWGWRVSLAVAAVPGGLLTLGALFLPETPNSLLQQGRDKRRVRVLLTRIRGVSDVED ELEDIVAANSDKANSSRGLQMIVTQRQYRPQLVMAIMIPFFQQAVPLYLSEMAPPLHRGAFSNG FQLCVGIGAVTARLTNFFTQKIRQGWGWRVSLAVAAVPGGLLTLGALFLPETPNSLLQQGRDKR RVRVLLTRIRGVSDVEDELEDIVAANSDKANSSRGLQMIVTQRQYRPQLVMAIMIPFFQQ(+) MMAMTSWGRYCRWVTIICRPRLLFALSLLAATMSSSSSSTSLTPRILVRSTLTLRLSLPCCSRL LGVSGRKSAPRVSNPPGTAATASETRHPQPCLIFCVKKLVRRAVTAPMPTQSWKPLLNAPRCSG GAISDRYSGTACWKKGIMMAMTSWGRYCRWVTIICRPRLLFALSLLAATMSSSSSSTSLTPRIL VRSTLTLRLSLPCCSRLLGVSGRKSAPRVSNPPGTAATASETRHPQPCLIFCVKKLVRRAVTAP MPTQSWKPLLNAPRCSGGAISDRYSGTACWKKGIMMAMTSWGRYCRWVTIICRPRLLFALSLLA ATMSSSSSSTSLTPRILVRSTLTLRLSLPCCSRLLGVSGRKSAPRVSNPPGTAATASETRHPQP CLIFCVKKLVRRAVTAPMPTQSWKPLLNAPRCSGGAISDRYSGTACWKKGIMMAMTSWGRYCRW VTIICRPRLLFALSLLAATMSSSSSSTSLTPRILVRSTLTLRLSLPCCSRLLGVSGRKSAPRVS NPPGTAATASETRHPQPCLIFCVKKLVRRAVTAPMPTQSWKPLLNAPRCSGGAISDRYSGT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0268300_circ_g.2

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