Plant Circular RNA Database

Detail information of Os03g0701000_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os03g0701000_circ_g.6
					
						ID in PlantcircBase
						osa_circ_021125
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 28133362-28135188  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0701000						
					
						Parent gene annotation
						
							Similar to HEAT repeat family protein, expressed. (Os03t0701000-
01);Similar to cDNA clone:J013135O16, full insert sequence. (Os0
3t0701000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0701000_circ_g.4 Os03g0701000_circ_g.5 Os03g0701000_circ_g.7 Os03g0701000_circ_g.8 						
					
						Support reads
						3
					
						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  
						
							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
						Os03t0701000-01:6
Os03t0701000-02:6

General Information
CircRNA Name	Os03g0701000_circ_g.6
ID in PlantcircBase	osa_circ_021125
Alias	NA
Organism	Oryza sativa
Position	chr3: 28133362-28135188 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0701000
Parent gene annotation	Similar to HEAT repeat family protein, expressed. (Os03t0701000- 01);Similar to cDNA clone:J013135O16, full insert sequence. (Os0 3t0701000-02)
Parent gene strand	+
Alternative splicing	Os03g0701000_circ_g.4 Os03g0701000_circ_g.5 Os03g0701000_circ_g.7 Os03g0701000_circ_g.8
Support reads	3
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	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	Os03t0701000-01:6 Os03t0701000-02:6

			
						 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  
						
							CAATGCGTTGGACTTGGATAATGCGATGGCATATGACAATGCTGTTTCTGCTCTTGGGAAAATA
TGTCAGTTTCATCGTGATGGCATTGATGCATCTCAGttatctggaacacttcttgaggaaggcc
aggtcagatctatagtagatggaattaaagaagtaataactgcgagtgctctcagaaggagaga
acgaacag

									
								

					

						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: 636
Transcript exons: 28133362-28133547,28134067-28134159,28134524-28134609,28
134704-28134770,28134909-28134975,28135052-28135188
TTATCTGGAACACTTCTTGAGGAAGGCCAGGTCAGATCTATAGTAGATGGAATTAAAGAAGTAA
TAACTGCGAGTGCTCTCAGAAGGAGAGAACGAACAGACAGGGCAAAAGCTGAAGATTTTGATTC
AGAAGAAGAGGATCTACTCAGAGAAGAAAATGAACAGGAGGATGAAATCTTCGATCAAATTGGT
GATTGTTTGGGCACTCTTGTTAAGACGTTCAAGACTTATTTCCTTCCATTCTTTGATGAACTTT
CCGTCTATTTGACACCTATGTTGGCCAAGGACAAAACAGTAGAGGAACGAAGGATTGCCATATG
CATTTTTGATGATGTTGCAGAGCACTGTCGCGAAGCAGCTGTCAGATATTATGATACATATCTT
CCTTCTTTATTAGAAGCCTGCACAAGTGAAAATCCAGATATTAGACAGGCTGCAGTTTATGGTA
TTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTGAGGCCCTGTCCAG
ACTATACAATGTAATCAAACATCCCAATGCGTTGGACTTGGATAATGCGATGGCATATGACAAT
GCTGTTTCTGCTCTTGGGAAAATATGTCAGTTTCATCGTGATGGCATTGATGCATCTCAG
						
					

						Genomic sequence
						
							TTATCTGGAACACTTCTTGAGGAAGGCCAGGTCAGATCTATAGTAGATGGAATTAAAGAAGTAA
TAACTGCGAGTGCTCTCAGAAGGAGAGAACGAACAGACAGGGCAAAAGCTGAAGATTTTGATTC
AGAAGAAGAGGATCTACTCAGAGAAGAAAATGAACAGGAGGATGAAATCTTCGATCAAGTAAGC
TATTGAAAACTAGACTGCTAATATTTCTGGAAAAAAATAGTATATTTAGATGTACCTGTTTATA
ATTTTTTTCCTGATACAAGAATTGACAAGTGTATGCAGTTCTGTGCACTACTGAAATTGAAAGA
TTTACACATGCTAATTAACTATTCCATTCAAATTTATAAGGCGAGCAGTTATTTCTACTTTCAA
ACTTTGCAAGTTATGATCAACAATTAGGTTTAGTGATCCAAATTGATGCAGCTACTCAAATGTA
TTTTGCTTTCACACGATCGTGATTTTCTAGTTAGTAAGAACATATTCAAATGAAATTTATGGTC
AAAGTCCAATCTAGAAGACCATGCTAAGTTAAATCTTGCCTTGTAAAGTTGAACGCGGTAGTAC
CTTAGACACCAAAAGGAGCAAGCATGATTATTGTACTTCCAACTTAAACTGTAGACACAGCTGT
GACTTCTACTTTCCAAGCTTTATTGGAAATAACTTATACAGATTTATCTTTTGTGATTTTCACA
GATTGGTGATTGTTTGGGCACTCTTGTTAAGACGTTCAAGACTTATTTCCTTCCATTCTTTGAT
GAACTTTCCGTCTATTTGACACCTATGTTGGTAAGTGGATCCATCTGATTTGATTGGAACTTCT
GTTTTCTTAGTGATAGAAGGGCAACATACTGAATGCTGAACTTTACACCAAAAGTGATTTTTCT
AGCAATGTGAAACCTTGGACCCTATATCTTTTGGGGGTCATTTTCAGATATTCCCTTTACCCAG
AATTTTTCTTGGCTTGCCATAGAAATCTTTTGCTTAAATGTTCCAAAGAGTAAACATAAAGCTA
CTAGAAACTATTCCAGTTCATTTTCAGATCTTGTAGCCTGTGATAAACATAGAACATCTTATTA
CAAAAAAAATACTCTGTCAAGGACAAAAAAGAACCTTCTGCGATTATAAGTATTTTTTTTGTTA
ATAATATTAGGCCAAGGACAAAACAGTAGAGGAACGAAGGATTGCCATATGCATTTTTGATGAT
GTTGCAGAGCACTGTCGCGAAGCAGCTGTCAGGTAACAGTTTAATGACCCTTTTAACCTTTTTA
TTGGATGAAATGATTCTTCTAACTTTTGATGAAACGTAATTTGTATGATCTGTGGTTCTCAGAT
ATTATGATACATATCTTCCTTCTTTATTAGAAGCCTGCACAAGTGAAAATCCAGATATTAGACA
GGTTTGAAATATTTTATGTTCTACTTGATGACTTGATGCATGAAGTTTCATGTTTCAACAGTAT
GCAATATTTCATTTATCAAGTTCTTTTATTTTTTTGAAAAAAACAATGAGAGTATGTGTTTCAT
GCTGCTTTCAGGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAG
GCCTCACACTGGTGGTATGTGTTGCATTTACGGTGAGCTAGGCTAGTTCATAGCTGAATATGTT
TTGATGTTGTTAATTCATATCTGCAGAGGCCCTGTCCAGACTATACAATGTAATCAAACATCCC
AATGCGTTGGACTTGGATAATGCGATGGCATATGACAATGCTGTTTCTGCTCTTGGGAAAATAT
GTCAGTTTCATCGTGATGGCATTGATGCATCTCAG
						
					

			
		

Sequences
Splice junction sequence	CAATGCGTTGGACTTGGATAATGCGATGGCATATGACAATGCTGTTTCTGCTCTTGGGAAAATA TGTCAGTTTCATCGTGATGGCATTGATGCATCTCAGttatctggaacacttcttgaggaaggcc aggtcagatctatagtagatggaattaaagaagtaataactgcgagtgctctcagaaggagaga acgaacag
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: 636 Transcript exons: 28133362-28133547,28134067-28134159,28134524-28134609,28 134704-28134770,28134909-28134975,28135052-28135188 TTATCTGGAACACTTCTTGAGGAAGGCCAGGTCAGATCTATAGTAGATGGAATTAAAGAAGTAA TAACTGCGAGTGCTCTCAGAAGGAGAGAACGAACAGACAGGGCAAAAGCTGAAGATTTTGATTC AGAAGAAGAGGATCTACTCAGAGAAGAAAATGAACAGGAGGATGAAATCTTCGATCAAATTGGT GATTGTTTGGGCACTCTTGTTAAGACGTTCAAGACTTATTTCCTTCCATTCTTTGATGAACTTT CCGTCTATTTGACACCTATGTTGGCCAAGGACAAAACAGTAGAGGAACGAAGGATTGCCATATG CATTTTTGATGATGTTGCAGAGCACTGTCGCGAAGCAGCTGTCAGATATTATGATACATATCTT CCTTCTTTATTAGAAGCCTGCACAAGTGAAAATCCAGATATTAGACAGGCTGCAGTTTATGGTA TTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAGGCCTCACACTGGTGAGGCCCTGTCCAG ACTATACAATGTAATCAAACATCCCAATGCGTTGGACTTGGATAATGCGATGGCATATGACAAT GCTGTTTCTGCTCTTGGGAAAATATGTCAGTTTCATCGTGATGGCATTGATGCATCTCAG
Genomic sequence	TTATCTGGAACACTTCTTGAGGAAGGCCAGGTCAGATCTATAGTAGATGGAATTAAAGAAGTAA TAACTGCGAGTGCTCTCAGAAGGAGAGAACGAACAGACAGGGCAAAAGCTGAAGATTTTGATTC AGAAGAAGAGGATCTACTCAGAGAAGAAAATGAACAGGAGGATGAAATCTTCGATCAAGTAAGC TATTGAAAACTAGACTGCTAATATTTCTGGAAAAAAATAGTATATTTAGATGTACCTGTTTATA ATTTTTTTCCTGATACAAGAATTGACAAGTGTATGCAGTTCTGTGCACTACTGAAATTGAAAGA TTTACACATGCTAATTAACTATTCCATTCAAATTTATAAGGCGAGCAGTTATTTCTACTTTCAA ACTTTGCAAGTTATGATCAACAATTAGGTTTAGTGATCCAAATTGATGCAGCTACTCAAATGTA TTTTGCTTTCACACGATCGTGATTTTCTAGTTAGTAAGAACATATTCAAATGAAATTTATGGTC AAAGTCCAATCTAGAAGACCATGCTAAGTTAAATCTTGCCTTGTAAAGTTGAACGCGGTAGTAC CTTAGACACCAAAAGGAGCAAGCATGATTATTGTACTTCCAACTTAAACTGTAGACACAGCTGT GACTTCTACTTTCCAAGCTTTATTGGAAATAACTTATACAGATTTATCTTTTGTGATTTTCACA GATTGGTGATTGTTTGGGCACTCTTGTTAAGACGTTCAAGACTTATTTCCTTCCATTCTTTGAT GAACTTTCCGTCTATTTGACACCTATGTTGGTAAGTGGATCCATCTGATTTGATTGGAACTTCT GTTTTCTTAGTGATAGAAGGGCAACATACTGAATGCTGAACTTTACACCAAAAGTGATTTTTCT AGCAATGTGAAACCTTGGACCCTATATCTTTTGGGGGTCATTTTCAGATATTCCCTTTACCCAG AATTTTTCTTGGCTTGCCATAGAAATCTTTTGCTTAAATGTTCCAAAGAGTAAACATAAAGCTA CTAGAAACTATTCCAGTTCATTTTCAGATCTTGTAGCCTGTGATAAACATAGAACATCTTATTA CAAAAAAAATACTCTGTCAAGGACAAAAAAGAACCTTCTGCGATTATAAGTATTTTTTTTGTTA ATAATATTAGGCCAAGGACAAAACAGTAGAGGAACGAAGGATTGCCATATGCATTTTTGATGAT GTTGCAGAGCACTGTCGCGAAGCAGCTGTCAGGTAACAGTTTAATGACCCTTTTAACCTTTTTA TTGGATGAAATGATTCTTCTAACTTTTGATGAAACGTAATTTGTATGATCTGTGGTTCTCAGAT ATTATGATACATATCTTCCTTCTTTATTAGAAGCCTGCACAAGTGAAAATCCAGATATTAGACA GGTTTGAAATATTTTATGTTCTACTTGATGACTTGATGCATGAAGTTTCATGTTTCAACAGTAT GCAATATTTCATTTATCAAGTTCTTTTATTTTTTTGAAAAAAACAATGAGAGTATGTGTTTCAT GCTGCTTTCAGGCTGCAGTTTATGGTATTGGCATTTGCGCTGAGTTTGGTGGCTCTGCATTTAG GCCTCACACTGGTGGTATGTGTTGCATTTACGGTGAGCTAGGCTAGTTCATAGCTGAATATGTT TTGATGTTGTTAATTCATATCTGCAGAGGCCCTGTCCAGACTATACAATGTAATCAAACATCCC AATGCGTTGGACTTGGATAATGCGATGGCATATGACAATGCTGTTTCTGCTCTTGGGAAAATAT GTCAGTTTCATCGTGATGGCATTGATGCATCTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005039* 						
					
						PMCS
						0.250527358

Conservation Information
Conserved circRNAs	osi_circ_005039*
PMCS	0.250527358

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28134155-28135185(+)
28135092-28133401(+)
						
						Potential amino acid sequence
						
							MLAKDKTVEERRIAICIFDDVAEHCREAAVRYYDTYLPSLLEACTSENPDIRQAAVYGIGICAE
FGGSAFRPHTGEALSRLYNVIKHPNALDLDNAMAYDNAVSALGKICQFHRDGIDASQLSGTLLE
EGQVRSIVDGIKEVITASALRRRERTDRAKAEDFDSEEEDLLREENEQEDEIFDQIGDCLGTLV
KTFKTYFLPFFDELSVYLTPMLAKDKTVEERRIAICIFDDVAEHCREAAVRYYDTYLPSLLEAC
TSENPDIRQAAVYGIGICAEFGGSAFRPHTGEALSRLYNVIKHPNALDLDNAMAYDNAVSALGK
ICQFHRDGIDASQLSGTLLEEGQVRSIVDGIKEVITASALRRRERTDRAKAEDFDSEEEDLLRE
ENEQEDEIFDQIGDCLGTLVKTFKTYFLPFFDELSVYLTPMLAKDKTVEERRIAICIFDDVAEH
CREAAVRYYDTYLPSLLEACTSENPDIRQAAVYGIGICAEFGGSAFRPHTGEALSRLYNVIKHP
NALDLDNAMAYDNAVSALGKICQFHRDGIDASQLSGTLLEEGQVRSIVDGIKEVITASALRRRE
RTDRAKAEDFDSEEEDLLREENEQEDEIFDQIGDCLGTLVKTFKTYFLPFFDELSVYLTPMLAK
DKTVEERRIAICIFDDVAEHCREAAVRYYDTYLPSLLEACTSENPDIRQAAVYGIGICAEFGGS
AFRPHTGEALSRLYNVIKHPNALDLDNAMAYDNAVSALGKICQFHRDGIDASQ(+)
MRWTWIMRWHMTMLFLLLGKYVSFIVMALMHLSYLEHFLRKARSDL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28134155-28135185(+) 28135092-28133401(+)
Potential amino acid sequence	MLAKDKTVEERRIAICIFDDVAEHCREAAVRYYDTYLPSLLEACTSENPDIRQAAVYGIGICAE FGGSAFRPHTGEALSRLYNVIKHPNALDLDNAMAYDNAVSALGKICQFHRDGIDASQLSGTLLE EGQVRSIVDGIKEVITASALRRRERTDRAKAEDFDSEEEDLLREENEQEDEIFDQIGDCLGTLV KTFKTYFLPFFDELSVYLTPMLAKDKTVEERRIAICIFDDVAEHCREAAVRYYDTYLPSLLEAC TSENPDIRQAAVYGIGICAEFGGSAFRPHTGEALSRLYNVIKHPNALDLDNAMAYDNAVSALGK ICQFHRDGIDASQLSGTLLEEGQVRSIVDGIKEVITASALRRRERTDRAKAEDFDSEEEDLLRE ENEQEDEIFDQIGDCLGTLVKTFKTYFLPFFDELSVYLTPMLAKDKTVEERRIAICIFDDVAEH CREAAVRYYDTYLPSLLEACTSENPDIRQAAVYGIGICAEFGGSAFRPHTGEALSRLYNVIKHP NALDLDNAMAYDNAVSALGKICQFHRDGIDASQLSGTLLEEGQVRSIVDGIKEVITASALRRRE RTDRAKAEDFDSEEEDLLREENEQEDEIFDQIGDCLGTLVKTFKTYFLPFFDELSVYLTPMLAK DKTVEERRIAICIFDDVAEHCREAAVRYYDTYLPSLLEACTSENPDIRQAAVYGIGICAEFGGS AFRPHTGEALSRLYNVIKHPNALDLDNAMAYDNAVSALGKICQFHRDGIDASQ(+) MRWTWIMRWHMTMLFLLLGKYVSFIVMALMHLSYLEHFLRKARSDL*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0701000_circ_g.6

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