Plant Circular RNA Database

Detail information of Os05g0462600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0462600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_028169
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 22728760-22730621  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0462600						
					
						Parent gene annotation
						
							SAC3/GANP family protein. (Os05t0462600-01);SAC3/GANP family pro
tein. (Os05t0462600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0462600_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						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
						Os05t0462600-01:4
Os05t0462600-02:4

General Information
CircRNA Name	Os05g0462600_circ_g.2
ID in PlantcircBase	osa_circ_028169
Alias	NA
Organism	Oryza sativa
Position	chr5: 22728760-22730621 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0462600
Parent gene annotation	SAC3/GANP family protein. (Os05t0462600-01);SAC3/GANP family pro tein. (Os05t0462600-02)
Parent gene strand	-
Alternative splicing	Os05g0462600_circ_g.3
Support reads	1
Tissues	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	Os05t0462600-01:4 Os05t0462600-02:4

			
						 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  
						
							TTTCTGGAATGGTTGCAACATTTTGTACCAAAGGAAGCAGTGGCTCAGTGTCCCAATTCTTAGT
AAGAAGGGTTCCATCAGCAATGGCGCTGTTTTTTATcttgacagtaagttcattctggattctc
tgaactgtgagatcttggcgaatagacttcagttgatcacatttataaagataattcttttgag
atgtttca

									
								

					

						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: 876
Transcript exons: 22728760-22728900,22729025-22729492,22729669-22729831,22
730518-22730621
CTTGACAGTAAGTTCATTCTGGATTCTCTGAACTGTGAGATCTTGGCGAATAGACTTCAGTTGA
TCACATTTATAAAGATAATTCTTTTGAGATGTTTCAACCATGGAAAGGGCCTTCTCCAAGACAT
GCTCCGGTCTTACTGTGGCAGGATCAGGTGCTGATGTAAGCCGGAGATATCGTTTCTCAATTTC
TTGGCATGTCCCCTTTACTGTCAATGCATCCCAATCCATATCCTCCACAGCCAAGGTAGTGCCA
TCTTCACAGCTTCTGGCAAGAAGAGCTGAAACAGCTCTTCGTGCATGTATATTAGCCATTACAT
CTTTACTTGCTGCAGAATTCCTCGATTTAGATGATGAATTCTGGTTCTTCTCAAAACGCTTTGA
CCTATGCTCCCTGCGCTTCTTCTCCTCAGGTGAATTTGCTAGTGCGGTTGCACTGGCATAATAT
TTGGTTAGATCCTGCTCCTTATCACTATCACTTGAAGCATTTCCATTTTGCATTTGATCTGAGT
AACTGCTGATCTTTTGCTTCTTGGCAGGCCGCTGACTGACTTTGTTTGCAGTCGCATGATGAGA
CTGGAAAAATTTTCTGGAATCCCAGTTATTACTCATTCTGTTTTTGGCTTCCAAATTATTGTGG
GTGGTACCATTCACCAACCCTTTTACCGGTTCCACCTTATCTGTAACCTTTTCCTCCACAACAG
GCTCCCACCTACTTTTTTGGCGTCTCCTATTGGTAGATGTCGACAAGGAGGGACTTGAATTGTT
TGCACTTGTTTCTGGAATGGTTGCAACATTTTGTACCAAAGGAAGCAGTGGCTCAGTGTCCCAA
TTCTTAGTAAGAAGGGTTCCATCAGCAATGGCGCTGTTTTTTAT
						
					

						Genomic sequence
						
							CTTGACAGTAAGTTCATTCTGGATTCTCTGAACTGTGAGATCTTGGCGAATAGACTTCAGTTGA
TCACATTTATAAAGATAATTCTTTTGAGATGTTTCAACCATGGAAAGGGCCTTCTCCAAGACAT
GCTCCGGTCTTACCTGCCAAGCATTATTCAGATAAGGAGAAGAAACAGTAGATATGATCAAATT
GCAAAAGAAAAAAGATTTGCTATTGATGCTTTTCAATTAAGAATCCAGGACAACAGTTGGTGGG
TTTTATTACTGTGGCAGGATCAGGTGCTGATGTAAGCCGGAGATATCGTTTCTCAATTTCTTGG
CATGTCCCCTTTACTGTCAATGCATCCCAATCCATATCCTCCACAGCCAAGGTAGTGCCATCTT
CACAGCTTCTGGCAAGAAGAGCTGAAACAGCTCTTCGTGCATGTATATTAGCCATTACATCTTT
ACTTGCTGCAGAATTCCTCGATTTAGATGATGAATTCTGGTTCTTCTCAAAACGCTTTGACCTA
TGCTCCCTGCGCTTCTTCTCCTCAGGTGAATTTGCTAGTGCGGTTGCACTGGCATAATATTTGG
TTAGATCCTGCTCCTTATCACTATCACTTGAAGCATTTCCATTTTGCATTTGATCTGAGTAACT
GCTGATCTTTTGCTTCTTGGCAGGCCGCTGACTGACTTTGTTTGCAGTCGCATGATGAGACTGG
AAAAATTTTCTGGAATCCCAGTTATTACTCTGCATGGCATTCATTCAAATATTTCAAATACTAA
GTAGAGCAATAACACAGGTATTTGATATTGGCAATTCAGAAATGGAAAGCCATACATGTAGTTA
AAATATGGAAATCTGTTCCTCTTGTACATTGACTGATTAGTATGAGATTTTGCAAGAGTTCACA
TGCCGGTTCTTACCATTCTGTTTTTGGCTTCCAAATTATTGTGGGTGGTACCATTCACCAACCC
TTTTACCGGTTCCACCTTATCTGTAACCTTTTCCTCCACAACAGGCTCCCACCTACTTTTTTGG
CGTCTCCTATTGGTAGATGTCGACAAGGAGGGACTTGAATTGTTTGCACTGCTATATGGAAAAC
AAATAGCAAAAAGTTAATTCAGAAATATGTGATTCTGCATAGCACAGAAGCAGCAATGAGCCAA
TGACTCAAAACTTTCTTTAGTGAAAGGAAGGAATCCTAATTTTGCCTACAACACGAATTTGGGC
ATAGTAGTTTGTGGCAAAATTAGATGGATCACTTTTAACCCAGTATCTATGTAATGCAAACATT
TGATTAAGTATATGAATAGTTCTGCACCCAAAAACCAATTCCCAATAATCACATCTTAATTATT
TTCTAGGGTTATCATGGTTAGAAATCGGAGGAAGGGTATAGGATTTTAAATATTCTTCATGAAA
TGATACATCCATGATTCCACCATATACTGCCCAATAAGATTAACATATGTCCAAGACAGTTGAG
ACATATCCAATTATATAAATCTGAAGGCATCTTACTATTATTATAGATAAATTATTTTTTTGCG
ATATTTGCTTAGATCATAACACTTCTGATATAAATTACCCAGAAGATAACACTGTTAAGAAGGT
GTAAGCTGGAATTTTCATTCATTGCATGGTGCTGGTTGCCCGAAAGTATAATTCTATAGCAACA
TAAGTCCAAAACAACAGATAAAAAATATCAGTCAACGTAGTTAAGTACTCAAAACACTACATTA
TCACTGTCCAGAGAATCCAGAAGCACAAACCTTGTTTCTGGAATGGTTGCAACATTTTGTACCA
AAGGAAGCAGTGGCTCAGTGTCCCAATTCTTAGTAAGAAGGGTTCCATCAGCAATGGCGCTGTT
TTTTAT
						
					

			
		

Sequences
Splice junction sequence	TTTCTGGAATGGTTGCAACATTTTGTACCAAAGGAAGCAGTGGCTCAGTGTCCCAATTCTTAGT AAGAAGGGTTCCATCAGCAATGGCGCTGTTTTTTATcttgacagtaagttcattctggattctc tgaactgtgagatcttggcgaatagacttcagttgatcacatttataaagataattcttttgag atgtttca
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: 876 Transcript exons: 22728760-22728900,22729025-22729492,22729669-22729831,22 730518-22730621 CTTGACAGTAAGTTCATTCTGGATTCTCTGAACTGTGAGATCTTGGCGAATAGACTTCAGTTGA TCACATTTATAAAGATAATTCTTTTGAGATGTTTCAACCATGGAAAGGGCCTTCTCCAAGACAT GCTCCGGTCTTACTGTGGCAGGATCAGGTGCTGATGTAAGCCGGAGATATCGTTTCTCAATTTC TTGGCATGTCCCCTTTACTGTCAATGCATCCCAATCCATATCCTCCACAGCCAAGGTAGTGCCA TCTTCACAGCTTCTGGCAAGAAGAGCTGAAACAGCTCTTCGTGCATGTATATTAGCCATTACAT CTTTACTTGCTGCAGAATTCCTCGATTTAGATGATGAATTCTGGTTCTTCTCAAAACGCTTTGA CCTATGCTCCCTGCGCTTCTTCTCCTCAGGTGAATTTGCTAGTGCGGTTGCACTGGCATAATAT TTGGTTAGATCCTGCTCCTTATCACTATCACTTGAAGCATTTCCATTTTGCATTTGATCTGAGT AACTGCTGATCTTTTGCTTCTTGGCAGGCCGCTGACTGACTTTGTTTGCAGTCGCATGATGAGA CTGGAAAAATTTTCTGGAATCCCAGTTATTACTCATTCTGTTTTTGGCTTCCAAATTATTGTGG GTGGTACCATTCACCAACCCTTTTACCGGTTCCACCTTATCTGTAACCTTTTCCTCCACAACAG GCTCCCACCTACTTTTTTGGCGTCTCCTATTGGTAGATGTCGACAAGGAGGGACTTGAATTGTT TGCACTTGTTTCTGGAATGGTTGCAACATTTTGTACCAAAGGAAGCAGTGGCTCAGTGTCCCAA TTCTTAGTAAGAAGGGTTCCATCAGCAATGGCGCTGTTTTTTAT
Genomic sequence	CTTGACAGTAAGTTCATTCTGGATTCTCTGAACTGTGAGATCTTGGCGAATAGACTTCAGTTGA TCACATTTATAAAGATAATTCTTTTGAGATGTTTCAACCATGGAAAGGGCCTTCTCCAAGACAT GCTCCGGTCTTACCTGCCAAGCATTATTCAGATAAGGAGAAGAAACAGTAGATATGATCAAATT GCAAAAGAAAAAAGATTTGCTATTGATGCTTTTCAATTAAGAATCCAGGACAACAGTTGGTGGG TTTTATTACTGTGGCAGGATCAGGTGCTGATGTAAGCCGGAGATATCGTTTCTCAATTTCTTGG CATGTCCCCTTTACTGTCAATGCATCCCAATCCATATCCTCCACAGCCAAGGTAGTGCCATCTT CACAGCTTCTGGCAAGAAGAGCTGAAACAGCTCTTCGTGCATGTATATTAGCCATTACATCTTT ACTTGCTGCAGAATTCCTCGATTTAGATGATGAATTCTGGTTCTTCTCAAAACGCTTTGACCTA TGCTCCCTGCGCTTCTTCTCCTCAGGTGAATTTGCTAGTGCGGTTGCACTGGCATAATATTTGG TTAGATCCTGCTCCTTATCACTATCACTTGAAGCATTTCCATTTTGCATTTGATCTGAGTAACT GCTGATCTTTTGCTTCTTGGCAGGCCGCTGACTGACTTTGTTTGCAGTCGCATGATGAGACTGG AAAAATTTTCTGGAATCCCAGTTATTACTCTGCATGGCATTCATTCAAATATTTCAAATACTAA GTAGAGCAATAACACAGGTATTTGATATTGGCAATTCAGAAATGGAAAGCCATACATGTAGTTA AAATATGGAAATCTGTTCCTCTTGTACATTGACTGATTAGTATGAGATTTTGCAAGAGTTCACA TGCCGGTTCTTACCATTCTGTTTTTGGCTTCCAAATTATTGTGGGTGGTACCATTCACCAACCC TTTTACCGGTTCCACCTTATCTGTAACCTTTTCCTCCACAACAGGCTCCCACCTACTTTTTTGG CGTCTCCTATTGGTAGATGTCGACAAGGAGGGACTTGAATTGTTTGCACTGCTATATGGAAAAC AAATAGCAAAAAGTTAATTCAGAAATATGTGATTCTGCATAGCACAGAAGCAGCAATGAGCCAA TGACTCAAAACTTTCTTTAGTGAAAGGAAGGAATCCTAATTTTGCCTACAACACGAATTTGGGC ATAGTAGTTTGTGGCAAAATTAGATGGATCACTTTTAACCCAGTATCTATGTAATGCAAACATT TGATTAAGTATATGAATAGTTCTGCACCCAAAAACCAATTCCCAATAATCACATCTTAATTATT TTCTAGGGTTATCATGGTTAGAAATCGGAGGAAGGGTATAGGATTTTAAATATTCTTCATGAAA TGATACATCCATGATTCCACCATATACTGCCCAATAAGATTAACATATGTCCAAGACAGTTGAG ACATATCCAATTATATAAATCTGAAGGCATCTTACTATTATTATAGATAAATTATTTTTTTGCG ATATTTGCTTAGATCATAACACTTCTGATATAAATTACCCAGAAGATAACACTGTTAAGAAGGT GTAAGCTGGAATTTTCATTCATTGCATGGTGCTGGTTGCCCGAAAGTATAATTCTATAGCAACA TAAGTCCAAAACAACAGATAAAAAATATCAGTCAACGTAGTTAAGTACTCAAAACACTACATTA TCACTGTCCAGAGAATCCAGAAGCACAAACCTTGTTTCTGGAATGGTTGCAACATTTTGTACCA AAGGAAGCAGTGGCTCAGTGTCCCAATTCTTAGTAAGAAGGGTTCCATCAGCAATGGCGCTGTT TTTTAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015558 						
					
						PMCS
						0.250401933

Conservation Information
Conserved circRNAs	osi_circ_015558
PMCS	0.250401933

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22730531-22728787(+)
22729673-22728762(-)
						
						Potential amino acid sequence
						
							MVATFCTKGSSGSVSQFLVRRVPSAMALFFILTVSSFWIL*(+)
MSNNWDSRKFFQSHHATANKVSQRPAKKQKISSYSDQMQNGNASSDSDKEQDLTKYYASATALA
NSPEEKKRREHRSKRFEKNQNSSSKSRNSAASKDVMANIHARRAVSALLARSCEDGTTLAVEDM
DWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEHVLEKALSMVETSQKNYLYKCDQLKSIRQDL
TVQRIQNELTVKIKNSAIADGTLLTKNWDTEPLLPLVQNVATIPETSANNSSPSLSTSTNRRRQ
KSRWEPVVEEKVTDKVEPVKGLVNGTTHNNLEAKNRMSNNWDSRKFFQSHHATANKVSQRPAKK
QKISSYSDQMQNGNASSDSDKEQDLTKYYASATALANSPEEKKRREHRSKRFEKNQNSSSKSRN
SAASKDVMANIHARRAVSALLARSCEDGTTLAVEDMDWDALTVKGTCQEIEKRYLRLTSAPDPA
TVRPEHVLEKALSMVETSQKNYLYKCDQLKSIRQDLTVQRIQNELTVKIKNSAIADGTLLTKNW
DTEPLLPLVQNVATIPETSANNSSPSLSTSTNRRRQKSRWEPVVEEKVTDKVEPVKGLVNGTTH
NNLEAKNRMSNNWDSRKFFQSHHATANKVSQRPAKKQKISSYSDQMQNGNASSDSDKEQDLTKY
YASATALANSPEEKKRREHRSKRFEKNQNSSSKSRNSAASKDVMANIHARRAVSALLARSCEDG
TTLAVEDMDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEHVLEKALSMVETSQKNYLYKCDQ
LKSIRQDLTVQRIQNELTVKIKNSAIADGTLLTKNWDTEPLLPLVQNVATIPETSANNSSPSLS
TSTNRRRQKSRWEPVVEEKVTDKVEPVKGLVNGTTHNNLEAKNRMSNNWDSRKFFQSHHATANK
VSQRPAKKQKISSYSDQMQNGNASSDSDKEQDLTKYYASATALANSPEEKKRREHRSKRFEKNQ
NSSSKSRNSAASKDVMANIHARRAVSALLARSCEDGTTLAVEDMDWDALTVKGTCQEIEKRYLR
LTSAPDPATVRPEHVLEKALSMVETSQKNYLYKCDQLKSIRQDLTVQRIQNELTVK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22730531-22728787(+) 22729673-22728762(-)
Potential amino acid sequence	MVATFCTKGSSGSVSQFLVRRVPSAMALFFILTVSSFWIL*(+) MSNNWDSRKFFQSHHATANKVSQRPAKKQKISSYSDQMQNGNASSDSDKEQDLTKYYASATALA NSPEEKKRREHRSKRFEKNQNSSSKSRNSAASKDVMANIHARRAVSALLARSCEDGTTLAVEDM DWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEHVLEKALSMVETSQKNYLYKCDQLKSIRQDL TVQRIQNELTVKIKNSAIADGTLLTKNWDTEPLLPLVQNVATIPETSANNSSPSLSTSTNRRRQ KSRWEPVVEEKVTDKVEPVKGLVNGTTHNNLEAKNRMSNNWDSRKFFQSHHATANKVSQRPAKK QKISSYSDQMQNGNASSDSDKEQDLTKYYASATALANSPEEKKRREHRSKRFEKNQNSSSKSRN SAASKDVMANIHARRAVSALLARSCEDGTTLAVEDMDWDALTVKGTCQEIEKRYLRLTSAPDPA TVRPEHVLEKALSMVETSQKNYLYKCDQLKSIRQDLTVQRIQNELTVKIKNSAIADGTLLTKNW DTEPLLPLVQNVATIPETSANNSSPSLSTSTNRRRQKSRWEPVVEEKVTDKVEPVKGLVNGTTH NNLEAKNRMSNNWDSRKFFQSHHATANKVSQRPAKKQKISSYSDQMQNGNASSDSDKEQDLTKY YASATALANSPEEKKRREHRSKRFEKNQNSSSKSRNSAASKDVMANIHARRAVSALLARSCEDG TTLAVEDMDWDALTVKGTCQEIEKRYLRLTSAPDPATVRPEHVLEKALSMVETSQKNYLYKCDQ LKSIRQDLTVQRIQNELTVKIKNSAIADGTLLTKNWDTEPLLPLVQNVATIPETSANNSSPSLS TSTNRRRQKSRWEPVVEEKVTDKVEPVKGLVNGTTHNNLEAKNRMSNNWDSRKFFQSHHATANK VSQRPAKKQKISSYSDQMQNGNASSDSDKEQDLTKYYASATALANSPEEKKRREHRSKRFEKNQ NSSSKSRNSAASKDVMANIHARRAVSALLARSCEDGTTLAVEDMDWDALTVKGTCQEIEKRYLR LTSAPDPATVRPEHVLEKALSMVETSQKNYLYKCDQLKSIRQDLTVQRIQNELTVK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0462600_circ_g.2

Address

Any questions?

Supported by