Plant Circular RNA Database

Detail information of Os08g0128300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os08g0128300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_035726
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 1612010-1613746  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os08g0128300						
					
						Parent gene annotation
						
							Similar to Actin-like protein 3 (Actin-related protein 3). (Os08
t0128300-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0128300_circ_g.1 Os08g0128300_circ_g.2 Os08g0128300_circ_g.4 						
					
						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
						Os08t0128300-01:4

General Information
CircRNA Name	Os08g0128300_circ_g.3
ID in PlantcircBase	osa_circ_035726
Alias	NA
Organism	Oryza sativa
Position	chr8: 1612010-1613746 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os08g0128300
Parent gene annotation	Similar to Actin-like protein 3 (Actin-related protein 3). (Os08 t0128300-01)
Parent gene strand	-
Alternative splicing	Os08g0128300_circ_g.1 Os08g0128300_circ_g.2 Os08g0128300_circ_g.4
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	Os08t0128300-01:4

			
						 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  
						
							GCACATCTCTGACTGGTCCAGAAAAGACTCATTCACAGCTACTACAGTAGGGATGGTGAAACAT
GGCTCAGAGTTACCAGAGAATCCAAGTTTGCTATACcttgacaatgtctgaagaagtgtagcaa
tacatttctttcaccctacgagctatatccaaagaatcctcaggtgcaataagttcacctcttt
cctgcaca

									
								

					

						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: 717
Transcript exons: 1612010-1612102,1612369-1612502,1613166-1613420,1613512-
1613746
CTTGACAATGTCTGAAGAAGTGTAGCAATACATTTCTTTCACCCTACGAGCTATATCCAAAGAA
TCCTCAGGTGCAATAAGTTCACCTCTTTCCTGTAAAAGCTGCAAAACAAACTGTGTAACGTCAC
TTCCTGAAAATGGAAAAGACTTGATGCTACTCCCAATTACGTAGCCGTTTACAACCGGCACCAC
ATGTGGAGCTCCATCCCCAATATCAACTACTACACCACAGAAACCGAGTCCTCATCAGAAATAC
TTTTCAGAAAGGCATATCCAGCAGAAAGACTGAGGACAGATTGAACAGAAATATATAGTCCAGG
AACATTGAAAGTCTCAAACATAATTTCCCCTGCACATTCACGACTTTCAGGTGTACTGACAGGA
CTATCGGTAAGAAGGAAGTAGTGCTCTTCAGGATTGCACCGTAGATAGTTGAAAATGCACTGTT
GCCAAAATCTTTCCATTGTATCCCAGTCATCAACCTGACCATGATTAATTGGGTGTTTTCTAGT
GTACAGCCCACTAGATTTAAATAGTGATAGAGCCTCATCACCAATAAAAAAATCCAGGTCAGCC
ATGACACCTGCATTGTACTGTGCTATCCAATTTGCACTACTGCACATCTCTGACTGGTCCAGAA
AAGACTCATTCACAGCTACTACAGTAGGGATGGTGAAACATGGCTCAGAGTTACCAGAGAATCC
AAGTTTGCTATAC
						
					

						Genomic sequence
						
							CTTGACAATGTCTGAAGAAGTGTAGCAATACATTTCTTTCACCCTACGAGCTATATCCAAAGAA
TCCTCAGGTGCAATAAGTTCACCTCTTTCCTGCACAACAAAAGATGCCATTAATCACTAAAAAC
ATTATGTGACAGGCCACAACTAATTATAGAGGCAATAAAGATCTGGGAGCAGCATAACTCAAAT
TACAGATGAAAACTGAGTAGAACATTGAGAATAGTATCAATTGTTCTAATTTAGTACTGTAAAA
ACTACTCGATGCTCCTTTCAATGTATTTGCACTATATGAATGCTAGATACACACACACATCCTG
TTTATGAACAACATGACTTATGAGGAGAAGATGAAATACCTGTAAAAGCTGCAAAACAAACTGT
GTAACGTCACTTCCTGAAAATGGAAAAGACTTGATGCTACTCCCAATTACGTAGCCGTTTACAA
CCGGCACCACATGTGGAGCTCCATCCCCAATATCAACTACTACACCTGTCATATCAGACTGACA
AAATATACTGGTCAAACTTAACAATAATAAGTAGCATGGTGTACCAGAAATTTTAAGGGCATGT
AATTAAAAGGGAGCATGAATAGACCCAACAGATATGAATTATGGGTGTTCAAACTTTTGCAAGG
TTGGTACTGGCTTGCTAGGAACTACAGATCTTTATCCTCAACCAAACTGGCAACTAAAAGACTA
AATTTACACAGTCATATTGTATTAATGTTGATTTCTCATAGTGCTTCAATCAGTATTATCTGTC
TTTCATATTGCTTAAATATATACTTCTCTTCGCATATAACACAATATGCAGAACATGTTTATTT
GCATACCAGTATACAAGGGAATAGCAAAACAAAACTGCATACAAGAATAGGAATTCTAGGAACA
ACACAGGCAACAAATATCTATGGATAATATGGCAGGAACAGACTGGATTTTTTTTTTTGAAATG
TGGCTATTTAAATATCTTAAAGAAAGGGAGCAAAAACAGAGTTTGTCATAGCAGGGCTACATGT
CATTAAAACAAGTTTACAATAATTTTGTAATACAGAAAATTCTTTTCAGTCAAGGAGATGCAGT
CCATGTGGAAACAAATGTCTCACTGGAGCAAATAAAAAGCATGAAAAGCAGATGTTTACAGAAC
CTACCACAGAAACCGAGTCCTCATCAGAAATACTTTTCAGAAAGGCATATCCAGCAGAAAGACT
GAGGACAGATTGAACAGAAATATATAGTCCAGGAACATTGAAAGTCTCAAACATAATTTCCCCT
GCACATTCACGACTTTCAGGTGTACTGACAGGACTATCGGTAAGAAGGAAGTAGTGCTCTTCAG
GATTGCACCGTAGATAGTTGAAAATGCACTGTTGCCAAAATCTTTCCATTGTATCCCAGTCATC
AACCTGCAAAAGGGTAAAAGGGACATACTATAGTCGTATAACATAGAAATATAAACAATTGTTG
TTATTACAAACAGAAAACACATAAACATACCTGACCATGATTAATTGGGTGTTTTCTAGTGTAC
AGCCCACTAGATTTAAATAGTGATAGAGCCTCATCACCAATAAAAAAATCCAGGTCAGCCATGA
CACCTGCATTGTACTGTGCTATCCAATTTGCACTACTGCACATCTCTGACTGGTCCAGAAAAGA
CTCATTCACAGCTACTACAGTAGGGATGGTGAAACATGGCTCAGAGTTACCAGAGAATCCAAGT
TTGCTATAC
						
					

			
		

Sequences
Splice junction sequence	GCACATCTCTGACTGGTCCAGAAAAGACTCATTCACAGCTACTACAGTAGGGATGGTGAAACAT GGCTCAGAGTTACCAGAGAATCCAAGTTTGCTATACcttgacaatgtctgaagaagtgtagcaa tacatttctttcaccctacgagctatatccaaagaatcctcaggtgcaataagttcacctcttt cctgcaca
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: 717 Transcript exons: 1612010-1612102,1612369-1612502,1613166-1613420,1613512- 1613746 CTTGACAATGTCTGAAGAAGTGTAGCAATACATTTCTTTCACCCTACGAGCTATATCCAAAGAA TCCTCAGGTGCAATAAGTTCACCTCTTTCCTGTAAAAGCTGCAAAACAAACTGTGTAACGTCAC TTCCTGAAAATGGAAAAGACTTGATGCTACTCCCAATTACGTAGCCGTTTACAACCGGCACCAC ATGTGGAGCTCCATCCCCAATATCAACTACTACACCACAGAAACCGAGTCCTCATCAGAAATAC TTTTCAGAAAGGCATATCCAGCAGAAAGACTGAGGACAGATTGAACAGAAATATATAGTCCAGG AACATTGAAAGTCTCAAACATAATTTCCCCTGCACATTCACGACTTTCAGGTGTACTGACAGGA CTATCGGTAAGAAGGAAGTAGTGCTCTTCAGGATTGCACCGTAGATAGTTGAAAATGCACTGTT GCCAAAATCTTTCCATTGTATCCCAGTCATCAACCTGACCATGATTAATTGGGTGTTTTCTAGT GTACAGCCCACTAGATTTAAATAGTGATAGAGCCTCATCACCAATAAAAAAATCCAGGTCAGCC ATGACACCTGCATTGTACTGTGCTATCCAATTTGCACTACTGCACATCTCTGACTGGTCCAGAA AAGACTCATTCACAGCTACTACAGTAGGGATGGTGAAACATGGCTCAGAGTTACCAGAGAATCC AAGTTTGCTATAC
Genomic sequence	CTTGACAATGTCTGAAGAAGTGTAGCAATACATTTCTTTCACCCTACGAGCTATATCCAAAGAA TCCTCAGGTGCAATAAGTTCACCTCTTTCCTGCACAACAAAAGATGCCATTAATCACTAAAAAC ATTATGTGACAGGCCACAACTAATTATAGAGGCAATAAAGATCTGGGAGCAGCATAACTCAAAT TACAGATGAAAACTGAGTAGAACATTGAGAATAGTATCAATTGTTCTAATTTAGTACTGTAAAA ACTACTCGATGCTCCTTTCAATGTATTTGCACTATATGAATGCTAGATACACACACACATCCTG TTTATGAACAACATGACTTATGAGGAGAAGATGAAATACCTGTAAAAGCTGCAAAACAAACTGT GTAACGTCACTTCCTGAAAATGGAAAAGACTTGATGCTACTCCCAATTACGTAGCCGTTTACAA CCGGCACCACATGTGGAGCTCCATCCCCAATATCAACTACTACACCTGTCATATCAGACTGACA AAATATACTGGTCAAACTTAACAATAATAAGTAGCATGGTGTACCAGAAATTTTAAGGGCATGT AATTAAAAGGGAGCATGAATAGACCCAACAGATATGAATTATGGGTGTTCAAACTTTTGCAAGG TTGGTACTGGCTTGCTAGGAACTACAGATCTTTATCCTCAACCAAACTGGCAACTAAAAGACTA AATTTACACAGTCATATTGTATTAATGTTGATTTCTCATAGTGCTTCAATCAGTATTATCTGTC TTTCATATTGCTTAAATATATACTTCTCTTCGCATATAACACAATATGCAGAACATGTTTATTT GCATACCAGTATACAAGGGAATAGCAAAACAAAACTGCATACAAGAATAGGAATTCTAGGAACA ACACAGGCAACAAATATCTATGGATAATATGGCAGGAACAGACTGGATTTTTTTTTTTGAAATG TGGCTATTTAAATATCTTAAAGAAAGGGAGCAAAAACAGAGTTTGTCATAGCAGGGCTACATGT CATTAAAACAAGTTTACAATAATTTTGTAATACAGAAAATTCTTTTCAGTCAAGGAGATGCAGT CCATGTGGAAACAAATGTCTCACTGGAGCAAATAAAAAGCATGAAAAGCAGATGTTTACAGAAC CTACCACAGAAACCGAGTCCTCATCAGAAATACTTTTCAGAAAGGCATATCCAGCAGAAAGACT GAGGACAGATTGAACAGAAATATATAGTCCAGGAACATTGAAAGTCTCAAACATAATTTCCCCT GCACATTCACGACTTTCAGGTGTACTGACAGGACTATCGGTAAGAAGGAAGTAGTGCTCTTCAG GATTGCACCGTAGATAGTTGAAAATGCACTGTTGCCAAAATCTTTCCATTGTATCCCAGTCATC AACCTGCAAAAGGGTAAAAGGGACATACTATAGTCGTATAACATAGAAATATAAACAATTGTTG TTATTACAAACAGAAAACACATAAACATACCTGACCATGATTAATTGGGTGTTTTCTAGTGTAC AGCCCACTAGATTTAAATAGTGATAGAGCCTCATCACCAATAAAAAAATCCAGGTCAGCCATGA CACCTGCATTGTACTGTGCTATCCAATTTGCACTACTGCACATCTCTGACTGGTCCAGAAAAGA CTCATTCACAGCTACTACAGTAGGGATGGTGAAACATGGCTCAGAGTTACCAGAGAATCCAAGT TTGCTATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.251123124

Conservation Information
Conserved circRNAs	NA
PMCS	0.251123124

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1613607-1612021(+)
1613710-1612031(+)
						
						Potential amino acid sequence
						
							MTPALYCAIQFALLHISDWSRKDSFTATTVGMVKHGSELPENPSLLYLDNV*(+)
MAQSYQRIQVCYTLTMSEEV*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1613607-1612021(+) 1613710-1612031(+)
Potential amino acid sequence	MTPALYCAIQFALLHISDWSRKDSFTATTVGMVKHGSELPENPSLLYLDNV(+) MAQSYQRIQVCYTLTMSEEV(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os08g0128300_circ_g.3

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