Plant Circular RNA Database

Detail information of Os07g0681000_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0681000_circ_g.1
					
						ID in PlantcircBase
						osa_circ_035338
					
						Alias
						Os_ciR4343
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 28860650-28861820  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os07g0681000						
					
						Parent gene annotation
						
							Similar to Eukaryotic translation initiation factor 2 beta subun
it (eIF-2-beta) (P38). (Os07t0681000-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						6
					
						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
						Os07t0681000-01:4

General Information
CircRNA Name	Os07g0681000_circ_g.1
ID in PlantcircBase	osa_circ_035338
Alias	Os_ciR4343
Organism	Oryza sativa
Position	chr7: 28860650-28861820 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os07g0681000
Parent gene annotation	Similar to Eukaryotic translation initiation factor 2 beta subun it (eIF-2-beta) (P38). (Os07t0681000-01)
Parent gene strand	-
Alternative splicing	NA
Support reads	6
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	Os07t0681000-01:4

			
						 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  
						
							TCATCATAATTGTAGTCCCTATCAGTTCCCTCCCACGGGTACCTAGGGGCACCTCCAAGCACAA
TTCCTTCCCCTTCTTCCTCCTCTACAACTTGGTCATctgttcgcagcgaaggaagaacagacga
ttttccttggatagaatggtatcagggcttttgcaaccattgcaaatgacgtactcatctgaaa
ggtttaaa

									
								

					

						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: 131
Transcript exons: 28860650-28860724,28861765-28861820
CTGTTCGCAGCGAAGGAAGAACAGACGATTTTCCTTGGATAGAATGGTATCAGGGCTTTTGCAA
CCATTGCAAATAGGGGCACCTCCAAGCACAATTCCTTCCCCTTCTTCCTCCTCTACAACTTGGT
CAT
Transcript length: 476
Transcript exons: 28860650-28860735,28860902-28861044,28861148-28861293,28
861720-28861820
CTGTTCGCAGCGAAGGAAGAACAGACGATTTTCCTTGGATAGAATGGTATCAGGGCTTTTGCAA
CCATTGCAAATGACGTACTCATTGATATATCTCCGCAGGATTGCTTCGAAGTTTTTCGGAGCAA
ATCTTCCTTTGATCACCAACCTTTGCTGCCCATCAAGTGATCCACTTGTCCCCATTTCAGCAAG
CAAAAACATCATCACATGCTCAGGTTGCCTATGCATCGTTTTGCACAAGTCCATAAAATTCACA
AAAACTGTCTTCTTCGTGCCCTCTCGAAGAACCTGTGGCGGCCTCATGACAGTTCTGCGTCTGT
CTCCAGCAAGATCTGGATTGTTTTCACGCAGAATATTGAACACTCTGCCCAGAAGCTCATCATA
ATTGTAGTCCCTATCAGTTCCCTCCCACGGGTACCTAGGGGCACCTCCAAGCACAATTCCTTCC
CCTTCTTCCTCCTCTACAACTTGGTCAT
						
					

						Genomic sequence
						
							CTGTTCGCAGCGAAGGAAGAACAGACGATTTTCCTTGGATAGAATGGTATCAGGGCTTTTGCAA
CCATTGCAAATGACGTACTCATCTGAAAGGTTTAAAGACGCAATAAGTTGCATATAACCCTTGA
AATCTTAAGTCAACTAACACTAACAAAACAGTAAACAACAAACGTACAACTTATGATAGTTTAC
CACACATGAAAAAGGGGAAGCTCATCTGTTCAACCAAGGGAATGAAGTAGGATAACTTACTGAT
ATATCTCCGCAGGATTGCTTCGAAGTTTTTCGGAGCAAATCTTCCTTTGATCACCAACCTTTGC
TGCCCATCAAGTGATCCACTTGTCCCCATTTCAGCAAGCAAAAACATCATCACATGCTCAGGTT
GCCTATGCATCCTGGTAAATAATTTCCGGTTAGTTCATCACAGCTTTATCCATTGTAAGAGCAT
TCAATAGAATATCAAATACAAAATACAATCCAAATGGTGAAAAAGCGCACGTTTTGCACAAGTC
CATAAAATTCACAAAAACTGTCTTCTTCGTGCCCTCTCGAAGAACCTGTGGCGGCCTCATGACA
GTTCTGCGTCTGTCTCCAGCAAGATCTGGATTGTTTTCACGCAGAATATTGAACACTCTGCCCA
GAAGCTGCAACAAAAATACCCAAATCAGGTTTTCACACGCACTACAGTAATTTGGTCATTCTGT
GCTAGTTCTGGATGACAGTTGTTTCTGTTTCACAATGTTGTTTGAGACTAAAGGATATTGAGTT
GCATGCTAGTTCAGTATAGAATTAGACCCACAAAGCCAGAGGAAAAAGTAAGTAAAATTAATAA
AGATTATCCAAAGCAAATTTTAATGCTCTCAAAACATCGCGTGACAGCAGTACATGAACAATAC
ATTGGAACAAATAGGTGTGGTTGTAAGAGCATGAAAACAGTCAAAACACAAAATTATGGTGCAT
GCAAAGCTTTGGAAAATTTACCAAAAGATTACTGAATAATGTGTTGTCTGCACAAGGAAATAAT
GAAAAGAGGAAAATAAATGAGGAGAAATATATAATAGTAGAAGCACCTCATCATAATTGTAGTC
CCTATCAGTTCCCTCCCACGGGTACCTAGGGGCACCTCCAAGCACAATTCCTTCCCCTTCTTCC
TCCTCTACAACTTGGTCAT
						
					

			
		

Sequences
Splice junction sequence	TCATCATAATTGTAGTCCCTATCAGTTCCCTCCCACGGGTACCTAGGGGCACCTCCAAGCACAA TTCCTTCCCCTTCTTCCTCCTCTACAACTTGGTCATctgttcgcagcgaaggaagaacagacga ttttccttggatagaatggtatcagggcttttgcaaccattgcaaatgacgtactcatctgaaa ggtttaaa
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: 131 Transcript exons: 28860650-28860724,28861765-28861820 CTGTTCGCAGCGAAGGAAGAACAGACGATTTTCCTTGGATAGAATGGTATCAGGGCTTTTGCAA CCATTGCAAATAGGGGCACCTCCAAGCACAATTCCTTCCCCTTCTTCCTCCTCTACAACTTGGT CAT Transcript length: 476 Transcript exons: 28860650-28860735,28860902-28861044,28861148-28861293,28 861720-28861820 CTGTTCGCAGCGAAGGAAGAACAGACGATTTTCCTTGGATAGAATGGTATCAGGGCTTTTGCAA CCATTGCAAATGACGTACTCATTGATATATCTCCGCAGGATTGCTTCGAAGTTTTTCGGAGCAA ATCTTCCTTTGATCACCAACCTTTGCTGCCCATCAAGTGATCCACTTGTCCCCATTTCAGCAAG CAAAAACATCATCACATGCTCAGGTTGCCTATGCATCGTTTTGCACAAGTCCATAAAATTCACA AAAACTGTCTTCTTCGTGCCCTCTCGAAGAACCTGTGGCGGCCTCATGACAGTTCTGCGTCTGT CTCCAGCAAGATCTGGATTGTTTTCACGCAGAATATTGAACACTCTGCCCAGAAGCTCATCATA ATTGTAGTCCCTATCAGTTCCCTCCCACGGGTACCTAGGGGCACCTCCAAGCACAATTCCTTCC CCTTCTTCCTCCTCTACAACTTGGTCAT
Genomic sequence	CTGTTCGCAGCGAAGGAAGAACAGACGATTTTCCTTGGATAGAATGGTATCAGGGCTTTTGCAA CCATTGCAAATGACGTACTCATCTGAAAGGTTTAAAGACGCAATAAGTTGCATATAACCCTTGA AATCTTAAGTCAACTAACACTAACAAAACAGTAAACAACAAACGTACAACTTATGATAGTTTAC CACACATGAAAAAGGGGAAGCTCATCTGTTCAACCAAGGGAATGAAGTAGGATAACTTACTGAT ATATCTCCGCAGGATTGCTTCGAAGTTTTTCGGAGCAAATCTTCCTTTGATCACCAACCTTTGC TGCCCATCAAGTGATCCACTTGTCCCCATTTCAGCAAGCAAAAACATCATCACATGCTCAGGTT GCCTATGCATCCTGGTAAATAATTTCCGGTTAGTTCATCACAGCTTTATCCATTGTAAGAGCAT TCAATAGAATATCAAATACAAAATACAATCCAAATGGTGAAAAAGCGCACGTTTTGCACAAGTC CATAAAATTCACAAAAACTGTCTTCTTCGTGCCCTCTCGAAGAACCTGTGGCGGCCTCATGACA GTTCTGCGTCTGTCTCCAGCAAGATCTGGATTGTTTTCACGCAGAATATTGAACACTCTGCCCA GAAGCTGCAACAAAAATACCCAAATCAGGTTTTCACACGCACTACAGTAATTTGGTCATTCTGT GCTAGTTCTGGATGACAGTTGTTTCTGTTTCACAATGTTGTTTGAGACTAAAGGATATTGAGTT GCATGCTAGTTCAGTATAGAATTAGACCCACAAAGCCAGAGGAAAAAGTAAGTAAAATTAATAA AGATTATCCAAAGCAAATTTTAATGCTCTCAAAACATCGCGTGACAGCAGTACATGAACAATAC ATTGGAACAAATAGGTGTGGTTGTAAGAGCATGAAAACAGTCAAAACACAAAATTATGGTGCAT GCAAAGCTTTGGAAAATTTACCAAAAGATTACTGAATAATGTGTTGTCTGCACAAGGAAATAAT GAAAAGAGGAAAATAAATGAGGAGAAATATATAATAGTAGAAGCACCTCATCATAATTGTAGTC CCTATCAGTTCCCTCCCACGGGTACCTAGGGGCACCTCCAAGCACAATTCCTTCCCCTTCTTCC TCCTCTACAACTTGGTCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.278614091

Conservation Information
Conserved circRNAs	NA
PMCS	0.278614091

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28861024-28861726(+)
28860737-28861819(-)
28861223-28861808(-)
						
						Potential amino acid sequence
						
							MLRLPMHRFAQVHKIHKNCLLRALSKNLWRPHDSSASVSSKIWIVFTQNIEHSAQKLIIIVVPI
SSLPRVPRGTSKHNSFPFFLLYNLVICSQRRKNRRFSLDRMVSGLLQPLQMTYSLIYLRRIASK
FFGANLPLITNLCCPSSDPLVPISASKNIITCSGCLCIVLHKSIKFTKTVFFVPSRRTCGGLMT
VLRLSPARSGLFSRRILNTLPRSSS*(+)
MSTSFAMVAKALIPFYPRKIVCSSFAANR*(-)
MRPPQVLREGTKKTVFVNFMDLCKTMHRQPEHVMMFLLAEMGTSGSLDGQQRLVIKGRFAPKNF
EAILRRYINEYVICNGCKSPDTILSKENRLFFLRCEQMTKL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28861024-28861726(+) 28860737-28861819(-) 28861223-28861808(-)
Potential amino acid sequence	MLRLPMHRFAQVHKIHKNCLLRALSKNLWRPHDSSASVSSKIWIVFTQNIEHSAQKLIIIVVPI SSLPRVPRGTSKHNSFPFFLLYNLVICSQRRKNRRFSLDRMVSGLLQPLQMTYSLIYLRRIASK FFGANLPLITNLCCPSSDPLVPISASKNIITCSGCLCIVLHKSIKFTKTVFFVPSRRTCGGLMT VLRLSPARSGLFSRRILNTLPRSSS(+) MSTSFAMVAKALIPFYPRKIVCSSFAANR(-) MRPPQVLREGTKKTVFVNFMDLCKTMHRQPEHVMMFLLAEMGTSGSLDGQQRLVIKGRFAPKNF EAILRRYINEYVICNGCKSPDTILSKENRLFFLRCEQMTKL*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os07g0681000_circ_g.1

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