Plant Circular RNA Database

Detail information of Os03g0608700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0608700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_020635
					
						Alias
						Os03circ20387/Os_ciR956
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 22911654-22912426  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os03g0608700						
					
						Parent gene annotation
						
							Similar to 10A19I.15. (Os03t0608700-01);Putative harbinger trans
posase-derived nuclease domain containing protein. (Os03t0608700
-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0608700_circ_g.1 						
					
						Support reads
						7/34
					
						Tissues
						leaf and panicle/root
					
						Exon boundary  
						
							No-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
						Os03t0608700-01:2

General Information
CircRNA Name	Os03g0608700_circ_g.2
ID in PlantcircBase	osa_circ_020635
Alias	Os03circ20387/Os_ciR956
Organism	Oryza sativa
Position	chr3: 22911654-22912426 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os03g0608700
Parent gene annotation	Similar to 10A19I.15. (Os03t0608700-01);Putative harbinger trans posase-derived nuclease domain containing protein. (Os03t0608700 -02)
Parent gene strand	-
Alternative splicing	Os03g0608700_circ_g.1
Support reads	7/34
Tissues	leaf and panicle/root
Exon boundary	No-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	Os03t0608700-01:2

			
						 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  
						
							ACTAGCCACCAGATTGGCCAAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCT
ACAACTCCCTTTCCGTTGTTGGTGTCCATATCCTAGctggaaggctattcaagttgtcccatag
atcatcaggtagttcattcccaactgtgctagaccttattatggcatttgctagtttgtcacta
gctctgtc

									
								

					

						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: 189
Transcript exons: 22911654-22911751,22912336-22912426
CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGCAGATTGGCCAAATTGGAGAGCATCAAAGA
TGACATGGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGTTGGTGTCCATATCCTAG
Transcript length: 222
Transcript exons: 22911654-22911798,22912350-22912426
CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA
TGTGCATATGTCTTTTGTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAACT
CCCTTTCCGTTGTTGGTGTCCATATCCTAG
Transcript length: 224
Transcript exons: 22911654-22911845,22912395-22912426
CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA
TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGG
CTCCCTTTCCGTTGTTGGTGTCCATATCCTAG
Transcript length: 273
Transcript exons: 22911654-22911817,22912318-22912426
CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA
TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCCCTTGTGCCACTAGCCACCAGATTGGCC
AAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGT
TGGTGTCCATATCCTAG
Transcript length: 282
Transcript exons: 22911654-22911732,22911748-22911848,22912325-22912426
CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTCTGTCAAATGCACCAACCAAACCATCATCGTCATGTGCATATGTCTTT
TGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGGGAGCCACTAGCCACC
AGATTGGCCAAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAACTCCCT
TTCCGTTGTTGGTGTCCATATCCTAG
Transcript length: 287
Transcript exons: 22911654-22911817,22912304-22912426
CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA
TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCAAACCAGCCGATGTCCTTGTGCCACTAG
CCACCAGATTGGCCAAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAAC
TCCCTTTCCGTTGTTGGTGTCCATATCCTAG
Transcript length: 439
Transcript exons: 22911654-22911880,22912215-22912426
CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA
TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGG
GAGCATCTTCATTCACTTCATTCTCTGTACCCTCGTCAAATGATTTCTAATCTGATCCCCGGTG
AGTGTTGTCGAAAACTTTTCATTCACAACTCTAGCACATGCATTGAGATGCACCTGCTTAAAAC
CAGCCGATGTCCTTGTGCCACTAGCCACCAGATTGGCCAAATTGGAGAGCATCAAAGATGACAT
GGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGTTGGTGTCCATATCCTAG
						
					

						Genomic sequence
						
							CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT
TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA
TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGG
GAGCATCTTCATTCACTTCATTCTCTGTACCCTCGACATCTTCAGTGCCTAGAACTGAGCTTGA
GTCCTTTGCAAAATTTCCTATAGCCATGGTACTACCAAATATGGTAAGCATCTCACCATAGTTG
GTAATAGGCCTGTTGAAAAACTCAGCATCGCTCTTGTTGTTATGCTGTCATGATTGTGAGATGC
ATTAGAAACAAGTAATTGAAGCAATTGACAATCATATTGAAGTTGGTAAGGTATATACCTGCAT
ATAGTCATTGTAGTGCTCCTCGTCAAGGCTAATAATGAAGTTCTCTTCGTCCCAAATAGCTCCA
CTCACCTTCCTAAGACGACTAATCTTTTGAAACTTCTTATGCCATGTCTTCAAATGATTTCTAA
TCTGATCCCCGGTGAGTGTTGTCGAAAACTTTTCATTCACAACTCTAGCACATGCATTGAGATG
CACCTGCTTAAAACCAGCCGATGTCCTTGTGCCACTAGCCACCAGATTGGCCAAATTGGAGAGC
ATCAAAGATGACATGGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGTTGGTGTCCATAT
CCTAG
						
					

			
		

Sequences
Splice junction sequence	ACTAGCCACCAGATTGGCCAAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCT ACAACTCCCTTTCCGTTGTTGGTGTCCATATCCTAGctggaaggctattcaagttgtcccatag atcatcaggtagttcattcccaactgtgctagaccttattatggcatttgctagtttgtcacta gctctgtc
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: 189 Transcript exons: 22911654-22911751,22912336-22912426 CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGCAGATTGGCCAAATTGGAGAGCATCAAAGA TGACATGGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGTTGGTGTCCATATCCTAG Transcript length: 222 Transcript exons: 22911654-22911798,22912350-22912426 CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA TGTGCATATGTCTTTTGTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAACT CCCTTTCCGTTGTTGGTGTCCATATCCTAG Transcript length: 224 Transcript exons: 22911654-22911845,22912395-22912426 CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGG CTCCCTTTCCGTTGTTGGTGTCCATATCCTAG Transcript length: 273 Transcript exons: 22911654-22911817,22912318-22912426 CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCCCTTGTGCCACTAGCCACCAGATTGGCC AAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGT TGGTGTCCATATCCTAG Transcript length: 282 Transcript exons: 22911654-22911732,22911748-22911848,22912325-22912426 CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTCTGTCAAATGCACCAACCAAACCATCATCGTCATGTGCATATGTCTTT TGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGGGAGCCACTAGCCACC AGATTGGCCAAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAACTCCCT TTCCGTTGTTGGTGTCCATATCCTAG Transcript length: 287 Transcript exons: 22911654-22911817,22912304-22912426 CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCAAACCAGCCGATGTCCTTGTGCCACTAG CCACCAGATTGGCCAAATTGGAGAGCATCAAAGATGACATGGATGATGTCCATGAGGCTACAAC TCCCTTTCCGTTGTTGGTGTCCATATCCTAG Transcript length: 439 Transcript exons: 22911654-22911880,22912215-22912426 CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGG GAGCATCTTCATTCACTTCATTCTCTGTACCCTCGTCAAATGATTTCTAATCTGATCCCCGGTG AGTGTTGTCGAAAACTTTTCATTCACAACTCTAGCACATGCATTGAGATGCACCTGCTTAAAAC CAGCCGATGTCCTTGTGCCACTAGCCACCAGATTGGCCAAATTGGAGAGCATCAAAGATGACAT GGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGTTGGTGTCCATATCCTAG
Genomic sequence	CTGGAAGGCTATTCAAGTTGTCCCATAGATCATCAGGTAGTTCATTCCCAACTGTGCTAGACCT TATTATGGCATTTGCTAGTTTGTCACTAGCTCTGTCAAATGCACCAACCAAACCATCATCGTCA TGTGCATATGTCTTTTGTCTCTTGGGCTTGCTAGCCGATGATCTCTCATCATGATCTATTGTGG GAGCATCTTCATTCACTTCATTCTCTGTACCCTCGACATCTTCAGTGCCTAGAACTGAGCTTGA GTCCTTTGCAAAATTTCCTATAGCCATGGTACTACCAAATATGGTAAGCATCTCACCATAGTTG GTAATAGGCCTGTTGAAAAACTCAGCATCGCTCTTGTTGTTATGCTGTCATGATTGTGAGATGC ATTAGAAACAAGTAATTGAAGCAATTGACAATCATATTGAAGTTGGTAAGGTATATACCTGCAT ATAGTCATTGTAGTGCTCCTCGTCAAGGCTAATAATGAAGTTCTCTTCGTCCCAAATAGCTCCA CTCACCTTCCTAAGACGACTAATCTTTTGAAACTTCTTATGCCATGTCTTCAAATGATTTCTAA TCTGATCCCCGGTGAGTGTTGTCGAAAACTTTTCATTCACAACTCTAGCACATGCATTGAGATG CACCTGCTTAAAACCAGCCGATGTCCTTGTGCCACTAGCCACCAGATTGGCCAAATTGGAGAGC ATCAAAGATGACATGGATGATGTCCATGAGGCTACAACTCCCTTTCCGTTGTTGGTGTCCATAT CCTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.376070289

Conservation Information
Conserved circRNAs	NA
PMCS	0.376070289

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0608700_circ_g.2

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