Plant Circular RNA Database

Detail information of Os04g0615100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0615100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_025243
					
						Alias
						Os_ciR9570
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 31216701-31218101  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os04g0615100						
					
						Parent gene annotation
						
							Similar to Lecithine cholesterol acyltransferase-like protein. (
Os04t0615100-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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
						Os04t0615100-01:6

General Information
CircRNA Name	Os04g0615100_circ_g.1
ID in PlantcircBase	osa_circ_025243
Alias	Os_ciR9570
Organism	Oryza sativa
Position	chr4: 31216701-31218101 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os04g0615100
Parent gene annotation	Similar to Lecithine cholesterol acyltransferase-like protein. ( Os04t0615100-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2
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	Os04t0615100-01:6

			
						 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  
						
							CAAAAGAGACACAGGATGTTTTGTGCAATGCAAAGCTTCCAAAATCAGTGAAGTTCTACAATAT
TTACGGAACTGATTATGACACTGCCCATACCGTTCGatcattggcgatgatagtgtttgctact
atcacgacatgatagtgcaaatgatcaaatggggataccaagaggggaaaacattatttggatt
tggttatg

									
								

					

						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: 749
Transcript exons: 31216701-31216819,31216999-31217134,31217239-31217290,31
217458-31217558,31217668-31217848,31217942-31218101
ATCATTGGCGATGATAGTGTTTGCTACTATCACGACATGATAGTGCAAATGATCAAATGGGGAT
ACCAAGAGGGGAAAACATTATTTGGATTTGGTTATGATTTCCGCCAGAGTAACAGGCTTTCAGA
AACACTTGATAGATTTTCCAGAAAGTTGGAGTCAGTTTACATAGCTTCCGGAGAAAAAAAGATC
AATCTCATTACTCATTCAATGGGAGGATTGCTTGTCAAATGCTTCATGTCCCTCCATAGTGATG
TCTTCGAGAAATACATAAAGAGTTGGATTGCAATTGCTGCACCATTTCAAGGTGCACCTGGGTA
CATAACTACTAGTCTGCTGAATGGTATGTCTTTTGTCGAAGGATGGGAGTCAAGATTCTTTATT
TCCAAGTGGAGTATGCAGCAATTGTTGCTCGAATGCCCATCAATTTACGAATTGTTGGCTAACT
CGACCTTCCAATGGGAAGATACTCCATATCTGCAGATCTGGAGACAGAAATTGGATACTAATGG
CAAGAAAAGTGCCATGTTAGAGTCATATGAGCCAGATGAAGCAATAAAAATGATTAGAGAAGCT
CTTTCCAAGCATGAGATCATTTCTGATGGTATGCACATTCCATTGCCCCTTGATATGGATATAT
TGAGATGGGCAAAAGAGACACAGGATGTTTTGTGCAATGCAAAGCTTCCAAAATCAGTGAAGTT
CTACAATATTTACGGAACTGATTATGACACTGCCCATACCGTTCG
						
					

						Genomic sequence
						
							ATCATTGGCGATGATAGTGTTTGCTACTATCACGACATGATAGTGCAAATGATCAAATGGGGAT
ACCAAGAGGGGAAAACATTATTTGGATTTGGTTATGATTTCCGCCAGAGTAACAGGTGAATTGT
GCACTTCTATTCCTGTTTTGCACATACAGTTCTGTTTATACTTTACAATTCTTTAGTGTTTGCT
CAACTGTGCTATTATAATTATTTATGAACACACTTGTGAAGTTGATCATTCTTTCTGTTGGTAG
AAGTGAGTTAACAGTTCTCTTTTTAATTCTCCTTTGGCTCAGGCTTTCAGAAACACTTGATAGA
TTTTCCAGAAAGTTGGAGTCAGTTTACATAGCTTCCGGAGAAAAAAAGATCAATCTCATTACTC
ATTCAATGGGAGGATTGCTTGTCAAATGCTTCATGTCCCTCCATAGTGATGTGGGTATTTCTCT
GTATATTTTGGATCTTTACCTGAGATTTGTCATGCTCAGCATCTTCGCTACCTGAAACTGCAAG
GCTATAATGTTGCTCCCTTTCTATAGGTCTTCGAGAAATACATAAAGAGTTGGATTGCAATTGC
TGCACCATTTCAAGGTACTGCCTTTTGGGGCCCCTTAATTTTTAAAGAAAGAAATAGGGAGATT
ATCACATATTTGTGTGTTTTAGTATTACATGATGATTATATTCTGTACATGATAATCTATTACC
TTCAATGTATGGGAGCAACTTTACATGGCAAACAACTTGCTACTCTATGACAGGTGCACCTGGG
TACATAACTACTAGTCTGCTGAATGGTATGTCTTTTGTCGAAGGATGGGAGTCAAGATTCTTTA
TTTCCAAGTGGAGTATGCAGCAATTGGTATGTTTTGGTAGCCATACATTGATCCTGTCCTCAAA
TATGTTCATGCAGATGACATTACTTTTGTCTTACAAACAAAGACTGAAACTGTTTCTTTTTTTT
GCTTCAGTTGCTCGAATGCCCATCAATTTACGAATTGTTGGCTAACTCGACCTTCCAATGGGAA
GATACTCCATATCTGCAGATCTGGAGACAGAAATTGGATACTAATGGCAAGAAAAGTGCCATGT
TAGAGTCATATGAGCCAGATGAAGCAATAAAAATGATTAGAGAAGCTCTTTCCAAGCATGAGGC
AAGTCATTTTATTTATACATTTACATTGCAATATAATTTACCCAATATAATAAGCTGTTTTCGA
AAAAAAAATGATGTTGGTATATTGCAGATCATTTCTGATGGTATGCACATTCCATTGCCCCTTG
ATATGGATATATTGAGATGGGCAAAAGAGACACAGGATGTTTTGTGCAATGCAAAGCTTCCAAA
ATCAGTGAAGTTCTACAATATTTACGGAACTGATTATGACACTGCCCATACCGTTCG
						
					

			
		

Sequences
Splice junction sequence	CAAAAGAGACACAGGATGTTTTGTGCAATGCAAAGCTTCCAAAATCAGTGAAGTTCTACAATAT TTACGGAACTGATTATGACACTGCCCATACCGTTCGatcattggcgatgatagtgtttgctact atcacgacatgatagtgcaaatgatcaaatggggataccaagaggggaaaacattatttggatt tggttatg
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: 749 Transcript exons: 31216701-31216819,31216999-31217134,31217239-31217290,31 217458-31217558,31217668-31217848,31217942-31218101 ATCATTGGCGATGATAGTGTTTGCTACTATCACGACATGATAGTGCAAATGATCAAATGGGGAT ACCAAGAGGGGAAAACATTATTTGGATTTGGTTATGATTTCCGCCAGAGTAACAGGCTTTCAGA AACACTTGATAGATTTTCCAGAAAGTTGGAGTCAGTTTACATAGCTTCCGGAGAAAAAAAGATC AATCTCATTACTCATTCAATGGGAGGATTGCTTGTCAAATGCTTCATGTCCCTCCATAGTGATG TCTTCGAGAAATACATAAAGAGTTGGATTGCAATTGCTGCACCATTTCAAGGTGCACCTGGGTA CATAACTACTAGTCTGCTGAATGGTATGTCTTTTGTCGAAGGATGGGAGTCAAGATTCTTTATT TCCAAGTGGAGTATGCAGCAATTGTTGCTCGAATGCCCATCAATTTACGAATTGTTGGCTAACT CGACCTTCCAATGGGAAGATACTCCATATCTGCAGATCTGGAGACAGAAATTGGATACTAATGG CAAGAAAAGTGCCATGTTAGAGTCATATGAGCCAGATGAAGCAATAAAAATGATTAGAGAAGCT CTTTCCAAGCATGAGATCATTTCTGATGGTATGCACATTCCATTGCCCCTTGATATGGATATAT TGAGATGGGCAAAAGAGACACAGGATGTTTTGTGCAATGCAAAGCTTCCAAAATCAGTGAAGTT CTACAATATTTACGGAACTGATTATGACACTGCCCATACCGTTCG
Genomic sequence	ATCATTGGCGATGATAGTGTTTGCTACTATCACGACATGATAGTGCAAATGATCAAATGGGGAT ACCAAGAGGGGAAAACATTATTTGGATTTGGTTATGATTTCCGCCAGAGTAACAGGTGAATTGT GCACTTCTATTCCTGTTTTGCACATACAGTTCTGTTTATACTTTACAATTCTTTAGTGTTTGCT CAACTGTGCTATTATAATTATTTATGAACACACTTGTGAAGTTGATCATTCTTTCTGTTGGTAG AAGTGAGTTAACAGTTCTCTTTTTAATTCTCCTTTGGCTCAGGCTTTCAGAAACACTTGATAGA TTTTCCAGAAAGTTGGAGTCAGTTTACATAGCTTCCGGAGAAAAAAAGATCAATCTCATTACTC ATTCAATGGGAGGATTGCTTGTCAAATGCTTCATGTCCCTCCATAGTGATGTGGGTATTTCTCT GTATATTTTGGATCTTTACCTGAGATTTGTCATGCTCAGCATCTTCGCTACCTGAAACTGCAAG GCTATAATGTTGCTCCCTTTCTATAGGTCTTCGAGAAATACATAAAGAGTTGGATTGCAATTGC TGCACCATTTCAAGGTACTGCCTTTTGGGGCCCCTTAATTTTTAAAGAAAGAAATAGGGAGATT ATCACATATTTGTGTGTTTTAGTATTACATGATGATTATATTCTGTACATGATAATCTATTACC TTCAATGTATGGGAGCAACTTTACATGGCAAACAACTTGCTACTCTATGACAGGTGCACCTGGG TACATAACTACTAGTCTGCTGAATGGTATGTCTTTTGTCGAAGGATGGGAGTCAAGATTCTTTA TTTCCAAGTGGAGTATGCAGCAATTGGTATGTTTTGGTAGCCATACATTGATCCTGTCCTCAAA TATGTTCATGCAGATGACATTACTTTTGTCTTACAAACAAAGACTGAAACTGTTTCTTTTTTTT GCTTCAGTTGCTCGAATGCCCATCAATTTACGAATTGTTGGCTAACTCGACCTTCCAATGGGAA GATACTCCATATCTGCAGATCTGGAGACAGAAATTGGATACTAATGGCAAGAAAAGTGCCATGT TAGAGTCATATGAGCCAGATGAAGCAATAAAAATGATTAGAGAAGCTCTTTCCAAGCATGAGGC AAGTCATTTTATTTATACATTTACATTGCAATATAATTTACCCAATATAATAAGCTGTTTTCGA AAAAAAAATGATGTTGGTATATTGCAGATCATTTCTGATGGTATGCACATTCCATTGCCCCTTG ATATGGATATATTGAGATGGGCAAAAGAGACACAGGATGTTTTGTGCAATGCAAAGCTTCCAAA ATCAGTGAAGTTCTACAATATTTACGGAACTGATTATGACACTGCCCATACCGTTCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014793 						
					
						PMCS
						0.253480312

Conservation Information
Conserved circRNAs	osi_circ_014793
PMCS	0.253480312

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							31216738-31216737(+)
31216707-31217947(-)
						
						Potential amino acid sequence
						
							MIVQMIKWGYQEGKTLFGFGYDFRQSNRLSETLDRFSRKLESVYIASGEKKINLITHSMGGLLV
KCFMSLHSDVFEKYIKSWIAIAAPFQGAPGYITTSLLNGMSFVEGWESRFFISKWSMQQLLLEC
PSIYELLANSTFQWEDTPYLQIWRQKLDTNGKKSAMLESYEPDEAIKMIREALSKHEIISDGMH
IPLPLDMDILRWAKETQDVLCNAKLPKSVKFYNIYGTDYDTAHTVRSLAMIVFATITT*(+)
MIERYGQCHNQFRKYCRTSLILEALHCTKHPVSLLPISIYPYQGAMECAYHQK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	31216738-31216737(+) 31216707-31217947(-)
Potential amino acid sequence	MIVQMIKWGYQEGKTLFGFGYDFRQSNRLSETLDRFSRKLESVYIASGEKKINLITHSMGGLLV KCFMSLHSDVFEKYIKSWIAIAAPFQGAPGYITTSLLNGMSFVEGWESRFFISKWSMQQLLLEC PSIYELLANSTFQWEDTPYLQIWRQKLDTNGKKSAMLESYEPDEAIKMIREALSKHEIISDGMH IPLPLDMDILRWAKETQDVLCNAKLPKSVKFYNIYGTDYDTAHTVRSLAMIVFATITT(+) MIERYGQCHNQFRKYCRTSLILEALHCTKHPVSLLPISIYPYQGAMECAYHQK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os04g0615100_circ_g.1

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