Plant Circular RNA Database

Detail information of Os03g0197000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0197000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_018364
					
						Alias
						Os03circ05800/Os_ciR1062
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 5086353-5088363  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os03g0197000						
					
						Parent gene annotation
						
							Di-trans-poly-cis-decaprenylcistransferase-like domain containin
g protein. (Os03t0197000-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0197000_circ_g.3 Os03g0197000_circ_g.4 Os03g0197000_circ_g.5 Os03g0197000_circ_g.6 						
					
						Support reads
						2/23/3
					
						Tissues
						leaf and panicle/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
						Os03t0197000-01:5

General Information
CircRNA Name	Os03g0197000_circ_g.2
ID in PlantcircBase	osa_circ_018364
Alias	Os03circ05800/Os_ciR1062
Organism	Oryza sativa
Position	chr3: 5086353-5088363 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os03g0197000
Parent gene annotation	Di-trans-poly-cis-decaprenylcistransferase-like domain containin g protein. (Os03t0197000-01)
Parent gene strand	-
Alternative splicing	Os03g0197000_circ_g.3 Os03g0197000_circ_g.4 Os03g0197000_circ_g.5 Os03g0197000_circ_g.6
Support reads	2/23/3
Tissues	leaf and panicle/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	Os03t0197000-01:5

			
						 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  
						
							AGATCAGATCAAACCATAAACTGCAAAGGCTGATTGCTAAGTGGACGATGAACCAAAGCAACCC
CAGAATCAGCTTGATAATCACTGATGGTCGAGACATcaaaattttggtatttcttcgagaattt
atagaatgctttcacaatggcgccatatttcattgaattcagtggtcccatatgcctggatgag
acatggaa

									
								

					

						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: 128
Transcript exons: 5086353-5086422,5088306-5088363
CAAAATTTTGGTATTTCTTCGAGAATTTATAGAATGCTTTCACAATGGCGCCATATTTCATTGA
ATTCAGGGACGATGAACCAAAGCAACCCCAGAATCAGCTTGATAATCACTGATGGTCGAGACAT
Transcript length: 742
Transcript exons: 5086353-5086435,5087193-5087289,5087401-5087605,5087696-
5087763,5088075-5088363
CAAAATTTTGGTATTTCTTCGAGAATTTATAGAATGCTTTCACAATGGCGCCATATTTCATTGA
ATTCAGTGGTCCCATATGCATTATCTCAGTATACCGCAATCTCCATGCAGGAAAACCTAAATGG
CATCTAGCAGGGCCATACACAAGAAGAAGATCAGGTTCTGGTCCACCACAACCTATTGCTTTCA
ATGCACCGGACATGTCAGCTTCTGTAAATACTATTTCACCATTTCCACAAGTATTCCTATTGCC
GTTCACACAAGTTGAGCAAAGTAAGCTGGCTGCTTTAGCAATCCCATCCTTGCCATCAGAACCA
GAAATACACTCTATTGTCATCTCTTTATGACAACAGGTCAAAGCTTTTGTATTTGCACCCACAT
CCAGATATTTTCCTGAATTCCCATATCTTGAACCATTCATAGCAGGTGCAAATGTTTTCTTCAG
CACTCCATCAATGTCATAAAGACATACATACTTCACACCAACATTTGAGAGCCAACATAAGAGC
TGATTGATCTTTGCAACATTTTTAGCTTCTCTGCTATCTACCACAACAGCCAAGTGTTTGAGCC
TATCCAGTTGGAATTTCCGATACTTTGGAATCAGCCCGAATGAAATGAGATAGCATTCTATACT
GTAGATCAGATCAAACCATAAACTGCAAAGGCTGATTGCTAAGTGGACGATGAACCAAAGCAAC
CCCAGAATCAGCTTGATAATCACTGATGGTCGAGACAT
						
					

						Genomic sequence
						
							CAAAATTTTGGTATTTCTTCGAGAATTTATAGAATGCTTTCACAATGGCGCCATATTTCATTGA
ATTCAGTGGTCCCATATGCCTGGATGAGACATGGAAGAGATATTTCAATGGTGGAAATAGTCAA
ATAGATAATGAGATCGAATTGCCGAGGTGCATGATTTCAGAATATGATTGAAGCATGCAGTCCT
TTTATGAAGATAAAGATACCTCTCCTAACATTTACATGCAAACCTGTTAGGACTGGTATATAAA
TATCTCTTTGGAGGATAATTAAATAGCTCAAAGTATAAAAGAACTATTACTTGGGAACAAGAAA
ATAGTGACTAGATTGGGTACTGAATGGTTATTTAATTACACCATACATGGGCTTACGCACCTAA
AAGCGAAATTGAGTCTGTTTGTTGTAATGCCATATGATCACGCTAAAATTTGAATAATCTTATT
CTATAATGATATTACTATAGGCATGAGCAGGAGTTATTCTGTGTATCATATTCTTTCTTTTTTA
CTCCCTCTGATTTAAAATGAAGAGTTCTCTACTCTTCTCTAAAAGTATGTTGTTATCTGACTTC
AAGGCATGTCCTCCATTTGTTCCTCCTATGCCTTTGCTCATTGAATGCTACAACTCCCATGTAT
GAGGTACCATTTCTAGTGTGTAATTACTACAGGGCAACAAGGTCACTTAACACTTTCTTAATTT
CTAAGCATAACTCTATAAGGACCTACATTTGGAATAAGAGGGACAAGAGTGGTGCGCATGTAGT
TTGAGTTCATTATCACAGGATCAATGCAAAATGTGAACAGAAAAACTAAAATGACCAAAAAAAA
ACACATACATTATCTCAGTATACCGCAATCTCCATGCAGGAAAACCTAAATGGCATCTAGCAGG
GCCATACACAAGAAGAAGATCAGGTTCTGGTCCACCACAACCTAATGAACGCAGCAGGAACAAT
TGGTCATATAGATTTATAATGATATAACTGATAAATGAGTATTATAAATTACAACATGCATTAA
AAATGGAAGGTTTTCCAAGCATACCTATTGCTTTCAATGCACCGGACATGTCAGCTTCTGTAAA
TACTATTTCACCATTTCCACAAGTATTCCTATTGCCGTTCACACAAGTTGAGCAAAGTAAGCTG
GCTGCTTTAGCAATCCCATCCTTGCCATCAGAACCAGAAATACACTCTATTGTCATCTCTTTAT
GACAACAGGTCAAAGCTTTTGTATTTGCACCCACATCCTACATGTTGTCATGGACATGAGGGAA
TATCGAGATCAATGTCATGGAATAAGAAAACAAAGCAACAAAAAGCTCGATTATGTGACTTACC
AGATATTTTCCTGAATTCCCATATCTTGAACCATTCATAGCAGGTGCAAATGTTTTCTTCAGCA
CTCCTATGGTGCAACATAAAGTGTTAATGTGCATCCCTTGTGCACTAGGTCACTAGACAGTGAC
ACAGTGTTGCTTAAATATCAGAAACTAAAGTGTAAAAGGATTAAAAGGAAACATGGCTATAATT
TGAATTATTCATCCACTGTTCTCCAAATAACAAAGACCACTGTTTCTCAAAGCCATTTAATTTC
TTATACTCATGTTCATTTTGATGAAAGGGAAAATGTTATATGTATGTACTAGGCCACTGGAGAT
ATTCTGCAAAGGAAACAATAGCATTCTACAAATGCAAATAGCAAACTCATTGTCTTACCATCAA
TGTCATAAAGACATACATACTTCACACCAACATTTGAGAGCCAACATAAGAGCTGATTGATCTT
TGCAACATTTTTAGCTTCTCTGCTATCTACCACAACAGCCAAGTGTTTGAGCCTATCCAGTTGG
AATTTCCGATACTTTGGAATCAGCCCGAATGAAATGAGATAGCATTCTATACTGTAGATCAGAT
CAAACCATAAACTGCAAAGGCTGATTGCTAAGTGGACGATGAACCAAAGCAACCCCAGAATCAG
CTTGATAATCACTGATGGTCGAGACAT
						
					

			
		

Sequences
Splice junction sequence	AGATCAGATCAAACCATAAACTGCAAAGGCTGATTGCTAAGTGGACGATGAACCAAAGCAACCC CAGAATCAGCTTGATAATCACTGATGGTCGAGACATcaaaattttggtatttcttcgagaattt atagaatgctttcacaatggcgccatatttcattgaattcagtggtcccatatgcctggatgag acatggaa
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: 128 Transcript exons: 5086353-5086422,5088306-5088363 CAAAATTTTGGTATTTCTTCGAGAATTTATAGAATGCTTTCACAATGGCGCCATATTTCATTGA ATTCAGGGACGATGAACCAAAGCAACCCCAGAATCAGCTTGATAATCACTGATGGTCGAGACAT Transcript length: 742 Transcript exons: 5086353-5086435,5087193-5087289,5087401-5087605,5087696- 5087763,5088075-5088363 CAAAATTTTGGTATTTCTTCGAGAATTTATAGAATGCTTTCACAATGGCGCCATATTTCATTGA ATTCAGTGGTCCCATATGCATTATCTCAGTATACCGCAATCTCCATGCAGGAAAACCTAAATGG CATCTAGCAGGGCCATACACAAGAAGAAGATCAGGTTCTGGTCCACCACAACCTATTGCTTTCA ATGCACCGGACATGTCAGCTTCTGTAAATACTATTTCACCATTTCCACAAGTATTCCTATTGCC GTTCACACAAGTTGAGCAAAGTAAGCTGGCTGCTTTAGCAATCCCATCCTTGCCATCAGAACCA GAAATACACTCTATTGTCATCTCTTTATGACAACAGGTCAAAGCTTTTGTATTTGCACCCACAT CCAGATATTTTCCTGAATTCCCATATCTTGAACCATTCATAGCAGGTGCAAATGTTTTCTTCAG CACTCCATCAATGTCATAAAGACATACATACTTCACACCAACATTTGAGAGCCAACATAAGAGC TGATTGATCTTTGCAACATTTTTAGCTTCTCTGCTATCTACCACAACAGCCAAGTGTTTGAGCC TATCCAGTTGGAATTTCCGATACTTTGGAATCAGCCCGAATGAAATGAGATAGCATTCTATACT GTAGATCAGATCAAACCATAAACTGCAAAGGCTGATTGCTAAGTGGACGATGAACCAAAGCAAC CCCAGAATCAGCTTGATAATCACTGATGGTCGAGACAT
Genomic sequence	CAAAATTTTGGTATTTCTTCGAGAATTTATAGAATGCTTTCACAATGGCGCCATATTTCATTGA ATTCAGTGGTCCCATATGCCTGGATGAGACATGGAAGAGATATTTCAATGGTGGAAATAGTCAA ATAGATAATGAGATCGAATTGCCGAGGTGCATGATTTCAGAATATGATTGAAGCATGCAGTCCT TTTATGAAGATAAAGATACCTCTCCTAACATTTACATGCAAACCTGTTAGGACTGGTATATAAA TATCTCTTTGGAGGATAATTAAATAGCTCAAAGTATAAAAGAACTATTACTTGGGAACAAGAAA ATAGTGACTAGATTGGGTACTGAATGGTTATTTAATTACACCATACATGGGCTTACGCACCTAA AAGCGAAATTGAGTCTGTTTGTTGTAATGCCATATGATCACGCTAAAATTTGAATAATCTTATT CTATAATGATATTACTATAGGCATGAGCAGGAGTTATTCTGTGTATCATATTCTTTCTTTTTTA CTCCCTCTGATTTAAAATGAAGAGTTCTCTACTCTTCTCTAAAAGTATGTTGTTATCTGACTTC AAGGCATGTCCTCCATTTGTTCCTCCTATGCCTTTGCTCATTGAATGCTACAACTCCCATGTAT GAGGTACCATTTCTAGTGTGTAATTACTACAGGGCAACAAGGTCACTTAACACTTTCTTAATTT CTAAGCATAACTCTATAAGGACCTACATTTGGAATAAGAGGGACAAGAGTGGTGCGCATGTAGT TTGAGTTCATTATCACAGGATCAATGCAAAATGTGAACAGAAAAACTAAAATGACCAAAAAAAA ACACATACATTATCTCAGTATACCGCAATCTCCATGCAGGAAAACCTAAATGGCATCTAGCAGG GCCATACACAAGAAGAAGATCAGGTTCTGGTCCACCACAACCTAATGAACGCAGCAGGAACAAT TGGTCATATAGATTTATAATGATATAACTGATAAATGAGTATTATAAATTACAACATGCATTAA AAATGGAAGGTTTTCCAAGCATACCTATTGCTTTCAATGCACCGGACATGTCAGCTTCTGTAAA TACTATTTCACCATTTCCACAAGTATTCCTATTGCCGTTCACACAAGTTGAGCAAAGTAAGCTG GCTGCTTTAGCAATCCCATCCTTGCCATCAGAACCAGAAATACACTCTATTGTCATCTCTTTAT GACAACAGGTCAAAGCTTTTGTATTTGCACCCACATCCTACATGTTGTCATGGACATGAGGGAA TATCGAGATCAATGTCATGGAATAAGAAAACAAAGCAACAAAAAGCTCGATTATGTGACTTACC AGATATTTTCCTGAATTCCCATATCTTGAACCATTCATAGCAGGTGCAAATGTTTTCTTCAGCA CTCCTATGGTGCAACATAAAGTGTTAATGTGCATCCCTTGTGCACTAGGTCACTAGACAGTGAC ACAGTGTTGCTTAAATATCAGAAACTAAAGTGTAAAAGGATTAAAAGGAAACATGGCTATAATT TGAATTATTCATCCACTGTTCTCCAAATAACAAAGACCACTGTTTCTCAAAGCCATTTAATTTC TTATACTCATGTTCATTTTGATGAAAGGGAAAATGTTATATGTATGTACTAGGCCACTGGAGAT ATTCTGCAAAGGAAACAATAGCATTCTACAAATGCAAATAGCAAACTCATTGTCTTACCATCAA TGTCATAAAGACATACATACTTCACACCAACATTTGAGAGCCAACATAAGAGCTGATTGATCTT TGCAACATTTTTAGCTTCTCTGCTATCTACCACAACAGCCAAGTGTTTGAGCCTATCCAGTTGG AATTTCCGATACTTTGGAATCAGCCCGAATGAAATGAGATAGCATTCTATACTGTAGATCAGAT CAAACCATAAACTGCAAAGGCTGATTGCTAAGTGGACGATGAACCAAAGCAACCCCAGAATCAG CTTGATAATCACTGATGGTCGAGACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004606* osi_circ_014011 						
					
						PMCS
						0.336073264

Conservation Information
Conserved circRNAs	osi_circ_004606* osi_circ_014011
PMCS	0.336073264

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5088312-5086413(+)
5088365-5088274(-)
						
						Potential amino acid sequence
						
							MNQSNPRISLIITDGRDIKILVFLREFIECFHNGAIFH*(+)
MSRPSVIIKLILGLLWFIVHLAISLCSLWFDLIYSIECYLISFGLIPKYRKFQLDRLKHLAVVV
DSREAKNVAKINQLLCWLSNVGVKYVCLYDIDGVLKKTFAPAMNGSRYGNSGKYLDVGANTKAL
TCCHKEMTIECISGSDGKDGIAKAASLLCSTCVNGNRNTCGNGEIVFTEADMSGALKAIGCGGP
EPDLLLVYGPARCHLGFPAWRLRYTEIMHMGPLNSMKYGAIVKAFYKFSKKYQNFDVSTISDYQ
ADSGVALVHRPLSNQPLQFMV*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5088312-5086413(+) 5088365-5088274(-)
Potential amino acid sequence	MNQSNPRISLIITDGRDIKILVFLREFIECFHNGAIFH(+) MSRPSVIIKLILGLLWFIVHLAISLCSLWFDLIYSIECYLISFGLIPKYRKFQLDRLKHLAVVV DSREAKNVAKINQLLCWLSNVGVKYVCLYDIDGVLKKTFAPAMNGSRYGNSGKYLDVGANTKAL TCCHKEMTIECISGSDGKDGIAKAASLLCSTCVNGNRNTCGNGEIVFTEADMSGALKAIGCGGP EPDLLLVYGPARCHLGFPAWRLRYTEIMHMGPLNSMKYGAIVKAFYKFSKKYQNFDVSTISDYQ ADSGVALVHRPLSNQPLQFMV(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0197000_circ_g.2

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