Plant Circular RNA Database

Detail information of Os05g0117600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0117600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_026297
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 927305-929251  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0117600						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os05t0117600-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0117600_circ_g.2 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os05t0117600-00:5

General Information
CircRNA Name	Os05g0117600_circ_g.1
ID in PlantcircBase	osa_circ_026297
Alias	NA
Organism	Oryza sativa
Position	chr5: 927305-929251 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0117600
Parent gene annotation	Hypothetical conserved gene. (Os05t0117600-00)
Parent gene strand	+
Alternative splicing	Os05g0117600_circ_g.2
Support reads	1
Tissues	shoot
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	Os05t0117600-00:5

			
						 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  
						
							GATATCCAGATGGTATTGCACTGGAAGCTGTTTTTGTTCATCCTTCTGTTGTTGATATGCTAGA
TGCTGCCGTGGGTGATACAATTGAGAATGGACAATGgaccatctgaaacatgagatcaagatgg
agatcaagaaacgcggacgtgcatcactggtagatttgtcagatatactgggggtggacctcta
ccatgttg

									
								

					

						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: 797
Transcript exons: 927305-927616,928160-928426,928506-928553,929004-929069,
929148-929251
GACCATCTGAAACATGAGATCAAGATGGAGATCAAGAAACGCGGACGTGCATCACTGGTAGATT
TGTCAGATATACTGGGGGTGGACCTCTACCATGTTGAGAGACAGTCACAGAAAGTCGTTGCAGA
TGATCCATCTCTTATGCTGATCAACGGCGAGATCATGTCACAGTCTTACTGGGACACTGTGACA
GAAGAGATAAATGAGAAGTTGCAGGAGCGCAGCCAGATTGCCTTGGCTGAGATTGCTGCCCAGT
TGCATATTGGATCAGAGCTGGTTGTCAATATCCTTGAGCCTCGGCTTGGAACTATTGTTAAAGG
AAGGCTAGAAGGTGGTCAGCTATACACTCCAGCATATGTCTCAAGAATTACTGCCATGGTCCGT
GGTGCCGCTAGGGGTATAACAGTTCCAACAAATTTGCCATCTGTTTGGAACAGCTTGCAGCTGC
AGCTCCAAGAAATGCATGGTGCTAGTGGAGTTTCTGTGGAAGGTTCATTCTTCCAGTCCATTTT
CAATGGCTTACTGAAAGAAGGTGTTGTGCTTGGATCAGTCCGTGCAGGAGTACAGTGGACACCA
GCTGTTTTTGCACATGCTCAAAAGGAGAGTGTTGATGCCTTTTTTTCACAGAACTCTTACATCG
GATACGAAGTGCTTCAGAAACTAGCAATTCCTCAGCCTAAACAGTATTTGGAGGCCAGATATCC
AGATGGTATTGCACTGGAAGCTGTTTTTGTTCATCCTTCTGTTGTTGATATGCTAGATGCTGCC
GTGGGTGATACAATTGAGAATGGACAATG
						
					

						Genomic sequence
						
							GACCATCTGAAACATGAGATCAAGATGGAGATCAAGAAACGCGGACGTGCATCACTGGTAGATT
TGTCAGATATACTGGGGGTGGACCTCTACCATGTTGAGAGACAGTCACAGAAAGTCGTTGCAGA
TGATCCATCTCTTATGCTGATCAACGGCGAGATCATGTCACAGTCTTACTGGGACACTGTGACA
GAAGAGATAAATGAGAAGTTGCAGGAGCGCAGCCAGATTGCCTTGGCTGAGATTGCTGCCCAGT
TGCATATTGGATCAGAGCTGGTTGTCAATATCCTTGAGCCTCGGCTTGGAACTATTGTAAGTCT
GCTAGTCTACCCTTTTAATGGTTTTTATCATTGGCTATTTTTTCTGCTAATCTATATTTATACT
TCGATAATCTAGATGTAATCTGCCATGCCAAGCATCATAGAGATAGTTAGTTAGCTTGTCCTAA
TAATTAAGTTATTAGTCGAAGAGGGCATTTTAGACACAATTATAGGAGCTTAGTCCTTTCCTGC
TTCTGCTGCTTCAGCTCACAATTTATGGACATTATTTTTTTTCCTAATTTCTGGTACACGAGTC
ACTGTTTCCTAATATTTATGTGGCTGTGCCATTTCTAAAGATCATCATTGTCCCAATTATTTGT
TTGATTGTTTCTACCTTTCTCTAGAGTACTGATGCCTTTTCATGTCTCCAAAGTCAAAAATGTA
TTATGAGTTGTGTTTTATACTTTACAACAGAACTGCAAAATCATGCAAGAGACCATAGCTACAG
TCAATCTGAACAGACCCTTCTTACTGCACCCTGGCATTTTCAGTTCTCATTCAAGCAAAATGAC
ACTATAGAAAATTCTCCTTTCAGGTTAAAGGAAGGCTAGAAGGTGGTCAGCTATACACTCCAGC
ATATGTCTCAAGAATTACTGCCATGGTCCGTGGTGCCGCTAGGGGTATAACAGTTCCAACAAAT
TTGCCATCTGTTTGGAACAGCTTGCAGCTGCAGCTCCAAGAAATGCATGGTGCTAGTGGAGTTT
CTGTGGAAGGTTCATTCTTCCAGTCCATTTTCAATGGCTTACTGAAAGAAGGTGTTGTGCTTGG
ATCAGTCCGTGCAGGAGTACAGTGGACACCAGCTGTAAGATCCGTACTTTTTTAGTTCGTATTC
TTAACACTTAAGCTATATTTGACATTGTGGCGATTTTCTTGTTTTTTAGGTTTTTGCACATGCT
CAAAAGGAGAGTGTTGATGCCTTTTTTTCACAGGTTAAGAAATTTCTTTTCTCAATTATGCAAG
AGAACTGCATCATATCATTACATTAAGAAGAAGAGGTTTAAATATTTACAAGACACCCACTGCC
GTGGAGATGGAAAAGGAAAGAAAACAAACCACCAAAATCCTCCAAAATCAAGAAATTTCCAACT
TATAATTTAGTTCCTACAATTTATAATATGTTAGAAGCATTAGTAGCGCAACTGGACCATATAT
TTATCTGGGCAAGATGACAACTTTGCATGGGTATTTCATATATAACCACTGGACATATTCTTCC
TTGTGCGTGCTCATGCACAAACTGGCGAACAGCTTTACCATATGTTGTTACTCAAAATTAAATC
TCTAGGTCTGATATTTAGCAAGGATATTGAATTCTGAAACATATGCTAAAATATAGTTATGCAT
TATCTCCTGTTTGTAACTTATTTGTCTTCTTTCAGAACTCTTACATCGGATACGAAGTGCTTCA
GAAACTAGCAATTCCTCAGCCTAAACAGTATTTGGAGGTAATGGAAGCTGTTAATGTGCCTTTA
CTGTTCAAATCATCGGTATGTTTATATTAACAATATTGTTCTCTTCTATAGGCCAGATATCCAG
ATGGTATTGCACTGGAAGCTGTTTTTGTTCATCCTTCTGTTGTTGATATGCTAGATGCTGCCGT
GGGTGATACAATTGAGAATGGACAATG
						
					

			
		

Sequences
Splice junction sequence	GATATCCAGATGGTATTGCACTGGAAGCTGTTTTTGTTCATCCTTCTGTTGTTGATATGCTAGA TGCTGCCGTGGGTGATACAATTGAGAATGGACAATGgaccatctgaaacatgagatcaagatgg agatcaagaaacgcggacgtgcatcactggtagatttgtcagatatactgggggtggacctcta ccatgttg
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: 797 Transcript exons: 927305-927616,928160-928426,928506-928553,929004-929069, 929148-929251 GACCATCTGAAACATGAGATCAAGATGGAGATCAAGAAACGCGGACGTGCATCACTGGTAGATT TGTCAGATATACTGGGGGTGGACCTCTACCATGTTGAGAGACAGTCACAGAAAGTCGTTGCAGA TGATCCATCTCTTATGCTGATCAACGGCGAGATCATGTCACAGTCTTACTGGGACACTGTGACA GAAGAGATAAATGAGAAGTTGCAGGAGCGCAGCCAGATTGCCTTGGCTGAGATTGCTGCCCAGT TGCATATTGGATCAGAGCTGGTTGTCAATATCCTTGAGCCTCGGCTTGGAACTATTGTTAAAGG AAGGCTAGAAGGTGGTCAGCTATACACTCCAGCATATGTCTCAAGAATTACTGCCATGGTCCGT GGTGCCGCTAGGGGTATAACAGTTCCAACAAATTTGCCATCTGTTTGGAACAGCTTGCAGCTGC AGCTCCAAGAAATGCATGGTGCTAGTGGAGTTTCTGTGGAAGGTTCATTCTTCCAGTCCATTTT CAATGGCTTACTGAAAGAAGGTGTTGTGCTTGGATCAGTCCGTGCAGGAGTACAGTGGACACCA GCTGTTTTTGCACATGCTCAAAAGGAGAGTGTTGATGCCTTTTTTTCACAGAACTCTTACATCG GATACGAAGTGCTTCAGAAACTAGCAATTCCTCAGCCTAAACAGTATTTGGAGGCCAGATATCC AGATGGTATTGCACTGGAAGCTGTTTTTGTTCATCCTTCTGTTGTTGATATGCTAGATGCTGCC GTGGGTGATACAATTGAGAATGGACAATG
Genomic sequence	GACCATCTGAAACATGAGATCAAGATGGAGATCAAGAAACGCGGACGTGCATCACTGGTAGATT TGTCAGATATACTGGGGGTGGACCTCTACCATGTTGAGAGACAGTCACAGAAAGTCGTTGCAGA TGATCCATCTCTTATGCTGATCAACGGCGAGATCATGTCACAGTCTTACTGGGACACTGTGACA GAAGAGATAAATGAGAAGTTGCAGGAGCGCAGCCAGATTGCCTTGGCTGAGATTGCTGCCCAGT TGCATATTGGATCAGAGCTGGTTGTCAATATCCTTGAGCCTCGGCTTGGAACTATTGTAAGTCT GCTAGTCTACCCTTTTAATGGTTTTTATCATTGGCTATTTTTTCTGCTAATCTATATTTATACT TCGATAATCTAGATGTAATCTGCCATGCCAAGCATCATAGAGATAGTTAGTTAGCTTGTCCTAA TAATTAAGTTATTAGTCGAAGAGGGCATTTTAGACACAATTATAGGAGCTTAGTCCTTTCCTGC TTCTGCTGCTTCAGCTCACAATTTATGGACATTATTTTTTTTCCTAATTTCTGGTACACGAGTC ACTGTTTCCTAATATTTATGTGGCTGTGCCATTTCTAAAGATCATCATTGTCCCAATTATTTGT TTGATTGTTTCTACCTTTCTCTAGAGTACTGATGCCTTTTCATGTCTCCAAAGTCAAAAATGTA TTATGAGTTGTGTTTTATACTTTACAACAGAACTGCAAAATCATGCAAGAGACCATAGCTACAG TCAATCTGAACAGACCCTTCTTACTGCACCCTGGCATTTTCAGTTCTCATTCAAGCAAAATGAC ACTATAGAAAATTCTCCTTTCAGGTTAAAGGAAGGCTAGAAGGTGGTCAGCTATACACTCCAGC ATATGTCTCAAGAATTACTGCCATGGTCCGTGGTGCCGCTAGGGGTATAACAGTTCCAACAAAT TTGCCATCTGTTTGGAACAGCTTGCAGCTGCAGCTCCAAGAAATGCATGGTGCTAGTGGAGTTT CTGTGGAAGGTTCATTCTTCCAGTCCATTTTCAATGGCTTACTGAAAGAAGGTGTTGTGCTTGG ATCAGTCCGTGCAGGAGTACAGTGGACACCAGCTGTAAGATCCGTACTTTTTTAGTTCGTATTC TTAACACTTAAGCTATATTTGACATTGTGGCGATTTTCTTGTTTTTTAGGTTTTTGCACATGCT CAAAAGGAGAGTGTTGATGCCTTTTTTTCACAGGTTAAGAAATTTCTTTTCTCAATTATGCAAG AGAACTGCATCATATCATTACATTAAGAAGAAGAGGTTTAAATATTTACAAGACACCCACTGCC GTGGAGATGGAAAAGGAAAGAAAACAAACCACCAAAATCCTCCAAAATCAAGAAATTTCCAACT TATAATTTAGTTCCTACAATTTATAATATGTTAGAAGCATTAGTAGCGCAACTGGACCATATAT TTATCTGGGCAAGATGACAACTTTGCATGGGTATTTCATATATAACCACTGGACATATTCTTCC TTGTGCGTGCTCATGCACAAACTGGCGAACAGCTTTACCATATGTTGTTACTCAAAATTAAATC TCTAGGTCTGATATTTAGCAAGGATATTGAATTCTGAAACATATGCTAAAATATAGTTATGCAT TATCTCCTGTTTGTAACTTATTTGTCTTCTTTCAGAACTCTTACATCGGATACGAAGTGCTTCA GAAACTAGCAATTCCTCAGCCTAAACAGTATTTGGAGGTAATGGAAGCTGTTAATGTGCCTTTA CTGTTCAAATCATCGGTATGTTTATATTAACAATATTGTTCTCTTCTATAGGCCAGATATCCAG ATGGTATTGCACTGGAAGCTGTTTTTGTTCATCCTTCTGTTGTTGATATGCTAGATGCTGCCGT GGGTGATACAATTGAGAATGGACAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.236269252

Conservation Information
Conserved circRNAs	NA
PMCS	0.236269252

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							927330-927311(+)
929250-927311(+)
927321-929191(-)
						
						Potential amino acid sequence
						
							MEIKKRGRASLVDLSDILGVDLYHVERQSQKVVADDPSLMLINGEIMSQSYWDTVTEEINEKLQ
ERSQIALAEIAAQLHIGSELVVNILEPRLGTIVKGRLEGGQLYTPAYVSRITAMVRGAARGITV
PTNLPSVWNSLQLQLQEMHGASGVSVEGSFFQSIFNGLLKEGVVLGSVRAGVQWTPAVFAHAQK
ESVDAFFSQNSYIGYEVLQKLAIPQPKQYLEARYPDGIALEAVFVHPSVVDMLDAAVGDTIENG
QWTI*(+)
MDHLKHEIKMEIKKRGRASLVDLSDILGVDLYHVERQSQKVVADDPSLMLINGEIMSQSYWDTV
TEEINEKLQERSQIALAEIAAQLHIGSELVVNILEPRLGTIVKGRLEGGQLYTPAYVSRITAMV
RGAARGITVPTNLPSVWNSLQLQLQEMHGASGVSVEGSFFQSIFNGLLKEGVVLGSVRAGVQWT
PAVFAHAQKESVDAFFSQNSYIGYEVLQKLAIPQPKQYLEARYPDGIALEAVFVHPSVVDMLDA
AVGDTIENGQWTI*(+)
MFQMVHCPFSIVSPTAASSISTTEG*(-)
						
						Sponge-miRNAs
						
							osa-miR5791 osa-miR156j-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	927330-927311(+) 929250-927311(+) 927321-929191(-)
Potential amino acid sequence	MEIKKRGRASLVDLSDILGVDLYHVERQSQKVVADDPSLMLINGEIMSQSYWDTVTEEINEKLQ ERSQIALAEIAAQLHIGSELVVNILEPRLGTIVKGRLEGGQLYTPAYVSRITAMVRGAARGITV PTNLPSVWNSLQLQLQEMHGASGVSVEGSFFQSIFNGLLKEGVVLGSVRAGVQWTPAVFAHAQK ESVDAFFSQNSYIGYEVLQKLAIPQPKQYLEARYPDGIALEAVFVHPSVVDMLDAAVGDTIENG QWTI(+) MDHLKHEIKMEIKKRGRASLVDLSDILGVDLYHVERQSQKVVADDPSLMLINGEIMSQSYWDTV TEEINEKLQERSQIALAEIAAQLHIGSELVVNILEPRLGTIVKGRLEGGQLYTPAYVSRITAMV RGAARGITVPTNLPSVWNSLQLQLQEMHGASGVSVEGSFFQSIFNGLLKEGVVLGSVRAGVQWT PAVFAHAQKESVDAFFSQNSYIGYEVLQKLAIPQPKQYLEARYPDGIALEAVFVHPSVVDMLDA AVGDTIENGQWTI(+) MFQMVHCPFSIVSPTAASSISTTEG*(-)
Sponge-miRNAs	osa-miR5791 osa-miR156j-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0117600_circ_g.1

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