Plant Circular RNA Database

Detail information of Os07g0170100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0170100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_032925
					
						Alias
						Os07circ03152/Os_ciR1012
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 3720755-3721821  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, circseq_cup, find_circ
					
						Parent gene
						
							Os07g0170100						
					
						Parent gene annotation
						
							Similar to Branched chain alpha-keto acid dehydrogenase E1 beta 
subunit. (Os07t0170100-01);Similar to Branched chain alpha-keto 
acid dehydrogenase E1 beta subunit. (Os07t0170100-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0170100_circ_g.1 Os07g0170100_circ_g.3 						
					
						Support reads
						4/22/5/7
					
						Tissues
						leaf and panicle/root/root/shoot, root, seed
					
						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
						Os07t0170100-02:5
Os07t0170100-01:5

General Information
CircRNA Name	Os07g0170100_circ_g.2
ID in PlantcircBase	osa_circ_032925
Alias	Os07circ03152/Os_ciR1012
Organism	Oryza sativa
Position	chr7: 3720755-3721821 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, circseq_cup, find_circ
Parent gene	Os07g0170100
Parent gene annotation	Similar to Branched chain alpha-keto acid dehydrogenase E1 beta subunit. (Os07t0170100-01);Similar to Branched chain alpha-keto acid dehydrogenase E1 beta subunit. (Os07t0170100-02)
Parent gene strand	-
Alternative splicing	Os07g0170100_circ_g.1 Os07g0170100_circ_g.3
Support reads	4/22/5/7
Tissues	leaf and panicle/root/root/shoot, root, seed
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	Os07t0170100-02:5 Os07t0170100-01:5

			
						 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  
						
							CGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACA
CCACCGAAACCCACATCTTCCCCGAAGACATAAGAGcttgagtccaggaacatgacaaaagaaa
gcctctggtgactgtgaatggtagtgaccaccatgaccgacagcgccataaggtgatcgaatcg
ttaatcct

									
								

					

						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: 172
Transcript exons: 3720755-3720846,3721742-3721821
CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA
CCGACAGCGCCATAAGGTGATCGAATCGTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGC
GGAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG
Transcript length: 203
Transcript exons: 3720755-3720844,3721709-3721821
CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA
CCGACAGCGCCATAAGGTGATCGAATCCTGTTCACACAACGGCGTATTGAAAACTCTATTCCTG
CCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCCCGA
AGACATAAGAG
Transcript length: 204
Transcript exons: 3720755-3720844,3721708-3721821
CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA
CCGACAGCGCCATAAGGTGATCGAATACCTGTTCACACAACGGCGTATTGAAAACTCTATTCCT
GCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCCCG
AAGACATAAGAG
Transcript length: 206
Transcript exons: 3720755-3720846,3721708-3721821
CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA
CCGACAGCGCCATAAGGTGATCGAATCGACCTGTTCACACAACGGCGTATTGAAAACTCTATTC
CTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCC
CGAAGACATAAGAG
Transcript length: 364
Transcript exons: 3720755-3720852,3720932-3720989,3721322-3721381,3721527-
3721562,3721710-3721821
CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA
CCGACAGCGCCATAAGGTGATCGAATCGTTAATCCTCCACAGTTAAATTCATTTCCACTCCGGT
ATCTAAATTTAGCTGCTTCATTAACAATCTGATCAAAAGCTGGAAAGATATAATCTGCGAACTG
GATCTCAGCAATAGCTCTATTACCCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGT
TCACACAACGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGC
GGAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG
						
					

						Genomic sequence
						
							CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA
CCGACAGCGCCATAAGGTGATCGAATCGTTAATCCTACAAAACATGGATACAATCATGAAAATT
TCTTCACAGACTACAGAATATTGAATGCTCAGATGTTTGACAAACCAACCTCCACAGTTAAATT
CATTTCCACTCCGGTATCTAAATTTAGCTGCTTCATTAACAATCTGTACCAGTAGTTGTATGTA
TAAGTATGTTGGCACAAAACATTGATCAAGGCTATACAAATGCAGTCACCATGGAAACAAAATA
GATTGAAATGTACTGTGCCAGTTGCAGATTTTTTTAAGAATTAAAACTGTGACAATAAATGGAT
TTAAAGAATCGAAGCACTTCCTGCTAAGTGAAGCAATAGCATGTGGTAGTGCCATACAACAAAA
CGAATATTTCATAAGTTCCTTCATATTGTTAGCACTATGGGAGTAAAGAAATAACGCATTTTTA
GAGACATGAAGCACTATATAGGTAAAGAGAATTTTCAATAAAACCGGAGGCATGCCTGATCAAA
AGCTGGAAAGATATAATCTGCGAACTGGATCTCAGCAATAGCTCTATTACCCTGCATGATGAAG
AAAATCAGAAAAAAAAATACTACTAGATATTATTTGGCGGTTATATTTTTATTCTTTTCCATCC
CAAAACTGGTAATTGACAATAAAGAATAATAAGAAGCGTTGTACAATTCAATTTTGTCGCTTGC
TCACCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGTTAAGAAGAGTCAGGTAAAGT
GATGATGAACCAATGATATAACAAAACTAGTGCCAAGCATAGCAAACTGACAATCCTGAAAATT
CATATGGTACACCTCCTATTGTAACAAAAGTTTCAGCAAGAAGCTCAGCAGAGACTCACCTGTT
CACACAACGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCG
GAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG
						
					

			
		

Sequences
Splice junction sequence	CGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACA CCACCGAAACCCACATCTTCCCCGAAGACATAAGAGcttgagtccaggaacatgacaaaagaaa gcctctggtgactgtgaatggtagtgaccaccatgaccgacagcgccataaggtgatcgaatcg ttaatcct
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: 172 Transcript exons: 3720755-3720846,3721742-3721821 CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA CCGACAGCGCCATAAGGTGATCGAATCGTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGC GGAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG Transcript length: 203 Transcript exons: 3720755-3720844,3721709-3721821 CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA CCGACAGCGCCATAAGGTGATCGAATCCTGTTCACACAACGGCGTATTGAAAACTCTATTCCTG CCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCCCGA AGACATAAGAG Transcript length: 204 Transcript exons: 3720755-3720844,3721708-3721821 CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA CCGACAGCGCCATAAGGTGATCGAATACCTGTTCACACAACGGCGTATTGAAAACTCTATTCCT GCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCCCG AAGACATAAGAG Transcript length: 206 Transcript exons: 3720755-3720846,3721708-3721821 CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA CCGACAGCGCCATAAGGTGATCGAATCGACCTGTTCACACAACGGCGTATTGAAAACTCTATTC CTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCC CGAAGACATAAGAG Transcript length: 364 Transcript exons: 3720755-3720852,3720932-3720989,3721322-3721381,3721527- 3721562,3721710-3721821 CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA CCGACAGCGCCATAAGGTGATCGAATCGTTAATCCTCCACAGTTAAATTCATTTCCACTCCGGT ATCTAAATTTAGCTGCTTCATTAACAATCTGATCAAAAGCTGGAAAGATATAATCTGCGAACTG GATCTCAGCAATAGCTCTATTACCCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGT TCACACAACGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGC GGAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG
Genomic sequence	CTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGA CCGACAGCGCCATAAGGTGATCGAATCGTTAATCCTACAAAACATGGATACAATCATGAAAATT TCTTCACAGACTACAGAATATTGAATGCTCAGATGTTTGACAAACCAACCTCCACAGTTAAATT CATTTCCACTCCGGTATCTAAATTTAGCTGCTTCATTAACAATCTGTACCAGTAGTTGTATGTA TAAGTATGTTGGCACAAAACATTGATCAAGGCTATACAAATGCAGTCACCATGGAAACAAAATA GATTGAAATGTACTGTGCCAGTTGCAGATTTTTTTAAGAATTAAAACTGTGACAATAAATGGAT TTAAAGAATCGAAGCACTTCCTGCTAAGTGAAGCAATAGCATGTGGTAGTGCCATACAACAAAA CGAATATTTCATAAGTTCCTTCATATTGTTAGCACTATGGGAGTAAAGAAATAACGCATTTTTA GAGACATGAAGCACTATATAGGTAAAGAGAATTTTCAATAAAACCGGAGGCATGCCTGATCAAA AGCTGGAAAGATATAATCTGCGAACTGGATCTCAGCAATAGCTCTATTACCCTGCATGATGAAG AAAATCAGAAAAAAAAATACTACTAGATATTATTTGGCGGTTATATTTTTATTCTTTTCCATCC CAAAACTGGTAATTGACAATAAAGAATAATAAGAAGCGTTGTACAATTCAATTTTGTCGCTTGC TCACCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGTTAAGAAGAGTCAGGTAAAGT GATGATGAACCAATGATATAACAAAACTAGTGCCAAGCATAGCAAACTGACAATCCTGAAAATT CATATGGTACACCTCCTATTGTAACAAAAGTTTCAGCAAGAAGCTCAGCAGAGACTCACCTGTT CACACAACGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCG GAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007047* osi_circ_017569 zma_circ_001267 						
					
						PMCS
						0.509616333

Conservation Information
Conserved circRNAs	osi_circ_007047* osi_circ_017569 zma_circ_001267
PMCS	0.509616333

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3721531-3721758(-)
3720833-3721758(-)
						
						Potential amino acid sequence
						
							MGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHGGHYHSQSPEA
FFCHVPGLKLLCLRGRCGFRWCLPLHNRAR*(-)
MALSVMVVTTIHSHQRLSFVMFLDSSSYVFGEDVGFGGVFRCTTGLADRFGRNRVFNTPLCEQG
IAGFAVGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHG
GHYHSQSPEAFFCHVPGLKLLCLRGRCGFRWCLPLHNRAR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3721531-3721758(-) 3720833-3721758(-)
Potential amino acid sequence	MGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHGGHYHSQSPEA FFCHVPGLKLLCLRGRCGFRWCLPLHNRAR(-) MALSVMVVTTIHSHQRLSFVMFLDSSSYVFGEDVGFGGVFRCTTGLADRFGRNRVFNTPLCEQG IAGFAVGLAAMGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHG GHYHSQSPEAFFCHVPGLKLLCLRGRCGFRWCLPLHNRAR(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os07g0170100_circ_g.2

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