Plant Circular RNA Database

Detail information of Os12g0235800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0235800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010915
					
						Alias
						Os12circ03190
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 7432182-7433127  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						KNIFE, PcircRNA_finder, SMALT, Segemehl
					
						Parent gene
						
							Os12g0235800						
					
						Parent gene annotation
						
							Similar to Argininosuccinate synthase (Fragment). (Os12t0235800-
01);Similar to Argininosuccinate synthase. (Os12t0235800-02);Sim
ilar to Argininosuccinate synthase. (Os12t0235800-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/23
					
						Tissues
						panicle/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
						Os12t0235800-02:3
Os12t0235800-01:3

General Information
CircRNA Name	Os12g0235800_circ_g.1
ID in PlantcircBase	osa_circ_010915
Alias	Os12circ03190
Organism	Oryza sativa
Position	chr12: 7432182-7433127 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	KNIFE, PcircRNA_finder, SMALT, Segemehl
Parent gene	Os12g0235800
Parent gene annotation	Similar to Argininosuccinate synthase (Fragment). (Os12t0235800- 01);Similar to Argininosuccinate synthase. (Os12t0235800-02);Sim ilar to Argininosuccinate synthase. (Os12t0235800-03)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/23
Tissues	panicle/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	Os12t0235800-02:3 Os12t0235800-01:3

			
						 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  
						
							AGATGCTATTGAGTATGCAAAGAAACACAATGTGCCAATTCCTGTTACAAAGAAATCAATATAC
AGCCGTGATCGAAATTTGTGGCACCTTAGCCATGAGggtgacattgaattggaagggctagaga
agaaggcaaaagctagtggtgcaagccagcttgttgtgaaggacttgaaagaagagttcgttag
tgaataca

						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
						
							GGTGACATTGAATTGGAAGGGCTAGAGAAGAAGGCAAAAGCTAGTGGTGCAAGCCAGCTTGTTG
TGAAGGACTTGAAAGAAGAGTTCGTTAGTGAATACATTTACCCCTGCTTGCGTGCTGGTGCAGT
TTATGAAAGAAAGTATCTGCTGGGGACTTCAATGGCTAGGCCTGTTATTGCCAAGGTGAATAGT
TGCTCTATCTGTAATCCCCTAGAACTTTAGTAATATATATTTTCCTTAAAGGTAATATTTTAAA
TACATCTTTTGCCCAGCTTTATCAGGAGCATGCTCATAAGTAACATGAGAAACAGTGGGATAAA
TCTATGGCAAAAGATAAATTTCCTGATAACTTTAGTAATAGCGTTAATAAATAACACTATGCTG
ATAACTTTTCCTGGGCTTCTATGGGAATTGAATGGTCTCCTGTCAAATTTCTTTGTTATATGTG
AGATAGGATCTATAAGGATTGTAGGACCCTACCTTTAATATACAATTGAGTAATTATCACAAAT
GGTTAATAATAAAAACATGGAAATGATGTGCTTGAAGTAACATCAGAAATATTGCAAATCATTT
ATATTTGTTTATTCTGTTTGAAAACACCATATACCTCCATTGCAGGCAATGGTTGATGTTGCAA
AGGAAGTTGGTGCAGATGCAGTTGCTCATGGATGCACTGGAAAAGGCAATGATCAGGTAAATAC
TGATGTTAATTAGAATATTAATATGGCAGTCATCTGATGCTAACCTTTTTCTGTAGGTTCGTTT
TGAGCTTACATTCTATGCTTTAAACCCTGAGCTTAAAGTGGTGGCACCTTGGAGGGAGTGGGAT
ATCACAGGACGTGAAGATGCTATTGAGTATGCAAAGAAACACAATGTGCCAATTCCTGTTACAA
AGAAATCAATATACAGCCGTGATCGAAATTTGTGGCACCTTAGCCATGAG

Sequences
Splice junction sequence	AGATGCTATTGAGTATGCAAAGAAACACAATGTGCCAATTCCTGTTACAAAGAAATCAATATAC AGCCGTGATCGAAATTTGTGGCACCTTAGCCATGAGggtgacattgaattggaagggctagaga agaaggcaaaagctagtggtgcaagccagcttgttgtgaaggacttgaaagaagagttcgttag tgaataca
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	GGTGACATTGAATTGGAAGGGCTAGAGAAGAAGGCAAAAGCTAGTGGTGCAAGCCAGCTTGTTG TGAAGGACTTGAAAGAAGAGTTCGTTAGTGAATACATTTACCCCTGCTTGCGTGCTGGTGCAGT TTATGAAAGAAAGTATCTGCTGGGGACTTCAATGGCTAGGCCTGTTATTGCCAAGGTGAATAGT TGCTCTATCTGTAATCCCCTAGAACTTTAGTAATATATATTTTCCTTAAAGGTAATATTTTAAA TACATCTTTTGCCCAGCTTTATCAGGAGCATGCTCATAAGTAACATGAGAAACAGTGGGATAAA TCTATGGCAAAAGATAAATTTCCTGATAACTTTAGTAATAGCGTTAATAAATAACACTATGCTG ATAACTTTTCCTGGGCTTCTATGGGAATTGAATGGTCTCCTGTCAAATTTCTTTGTTATATGTG AGATAGGATCTATAAGGATTGTAGGACCCTACCTTTAATATACAATTGAGTAATTATCACAAAT GGTTAATAATAAAAACATGGAAATGATGTGCTTGAAGTAACATCAGAAATATTGCAAATCATTT ATATTTGTTTATTCTGTTTGAAAACACCATATACCTCCATTGCAGGCAATGGTTGATGTTGCAA AGGAAGTTGGTGCAGATGCAGTTGCTCATGGATGCACTGGAAAAGGCAATGATCAGGTAAATAC TGATGTTAATTAGAATATTAATATGGCAGTCATCTGATGCTAACCTTTTTCTGTAGGTTCGTTT TGAGCTTACATTCTATGCTTTAAACCCTGAGCTTAAAGTGGTGGCACCTTGGAGGGAGTGGGAT ATCACAGGACGTGAAGATGCTATTGAGTATGCAAAGAAACACAATGTGCCAATTCCTGTTACAA AGAAATCAATATACAGCCGTGATCGAAATTTGTGGCACCTTAGCCATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010297 						
					
						PMCS
						0.433440213

Conservation Information
Conserved circRNAs	osi_circ_010297
PMCS	0.433440213

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7432342-7433124(+)
7433031-7432203(+)
7432284-7432964(-)
						
						Potential amino acid sequence
						
							MARPVIAKAMVDVAKEVGADAVAHGCTGKGNDQVRFELTFYALNPELKVVAPWREWDITGREDA
IEYAKKHNVPIPVTKKSIYSRDRNLWHLSHEGDIELEGLEKKAKASGASQLVVKDLKEEFVSEY
IYPCLRAGAVYERKYLLGTSMARPVIAKAMVDVAKEVGADAVAHGCTGKGNDQVRFELTFYALN
PELKVVAPWREWDITGREDAIEYAKKHNVPIPVTKKSIYSRDRNLWHLSHEGDIELEGLEKKAK
ASGASQLVVKDLKEEFVSEYIYPCLRAGAVYERKYLLGTSMARPVIAKAMVDVAKEVGADAVAH
GCTGKGNDQVRFELTFYALNPELKVVAPWREWDITGREDAIEYAKKHNVPIPVTKKSIYSRDRN
LWHLSHEGDIELEGLEKKAKASGASQLVVKDLKEEFVSEYIYPCLRAGAVYERKYLLGTSMARP
VIAKAMVDVAKEVGADAVAHGCTGKGNDQVRFELTFYALNPELKVVAPWREWDITGREDAIEYA
KKHNVPIPVTKKSIYSRDRNLWHLSHE(+)
MLLSMQRNTMCQFLLQRNQYTAVIEICGTLAMRVTLNWKG*(+)
MYSLTNSSFKSFTTSWLAPLAFAFFSSPSNSMSPSWLRCHKFRSRLYIDFFVTGIGTLCFFAYS
IASSRPVISHSLQGATTLSSGFKA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7432342-7433124(+) 7433031-7432203(+) 7432284-7432964(-)
Potential amino acid sequence	MARPVIAKAMVDVAKEVGADAVAHGCTGKGNDQVRFELTFYALNPELKVVAPWREWDITGREDA IEYAKKHNVPIPVTKKSIYSRDRNLWHLSHEGDIELEGLEKKAKASGASQLVVKDLKEEFVSEY IYPCLRAGAVYERKYLLGTSMARPVIAKAMVDVAKEVGADAVAHGCTGKGNDQVRFELTFYALN PELKVVAPWREWDITGREDAIEYAKKHNVPIPVTKKSIYSRDRNLWHLSHEGDIELEGLEKKAK ASGASQLVVKDLKEEFVSEYIYPCLRAGAVYERKYLLGTSMARPVIAKAMVDVAKEVGADAVAH GCTGKGNDQVRFELTFYALNPELKVVAPWREWDITGREDAIEYAKKHNVPIPVTKKSIYSRDRN LWHLSHEGDIELEGLEKKAKASGASQLVVKDLKEEFVSEYIYPCLRAGAVYERKYLLGTSMARP VIAKAMVDVAKEVGADAVAHGCTGKGNDQVRFELTFYALNPELKVVAPWREWDITGREDAIEYA KKHNVPIPVTKKSIYSRDRNLWHLSHE(+) MLLSMQRNTMCQFLLQRNQYTAVIEICGTLAMRVTLNWKG(+) MYSLTNSSFKSFTTSWLAPLAFAFFSSPSNSMSPSWLRCHKFRSRLYIDFFVTGIGTLCFFAYS IASSRPVISHSLQGATTLSSGFKA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Chu et al., 2017

circRNA

Detail information of Os12g0235800_circ_g.1

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