Plant Circular RNA Database

Detail information of Os05g0392300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0392300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_027772
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 19084959-19086244  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0392300						
					
						Parent gene annotation
						
							Similar to Cyclin-dependent kinase D-1. (Os05t0392300-01);Simila
r to Cyclin-dependent kinase D-1. (Os05t0392300-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0392300_circ_g.1 Os05g0392300_circ_g.3 						
					
						Support reads
						1
					
						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
						Os05t0392300-01:3

General Information
CircRNA Name	Os05g0392300_circ_g.2
ID in PlantcircBase	osa_circ_027772
Alias	NA
Organism	Oryza sativa
Position	chr5: 19084959-19086244 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0392300
Parent gene annotation	Similar to Cyclin-dependent kinase D-1. (Os05t0392300-01);Simila r to Cyclin-dependent kinase D-1. (Os05t0392300-02)
Parent gene strand	+
Alternative splicing	Os05g0392300_circ_g.1 Os05g0392300_circ_g.3
Support reads	1
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	Os05t0392300-01:3

			
						 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  
						
							AGAATTATTATTTGGCACCAAGCAGTATGGATCTGCAGTTGATATTTGGGCTGCTGGTTGTATT
TTTGCTGAACTGCTGCTTAGGCGACCGTTTCTCCAGactgggaatacagtcgcaataaagaaaa
tccggctagggaagtacaaggaaggtgtcaatttcactgcattgagggaaattaaacttcttaa
ggagctga

									
								

					

						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: 491
Transcript exons: 19084959-19085257,19085366-19085431,19086119-19086244
ACTGGGAATACAGTCGCAATAAAGAAAATCCGGCTAGGGAAGTACAAGGAAGGTGTCAATTTCA
CTGCATTGAGGGAAATTAAACTTCTTAAGGAGCTGAAAGATTCTAATATTATAGAGCTGATTGA
TGCTTTCCCTTACAAGGGAAACTTACATCTTGTATTTGAGTTCATGGAGACTGATTTGGAAGCT
GTCATACGAGATAGGAACATTGTATTATCTCCAGCTGATACAAAATCTTATATTCAGATGATGT
TAAAAGGTTTAGCCTTCTGCCATAAGAAATGGGTGCTACACAGCTTAAGCTTGCTGACTTTGGT
CTGGCGCGCATATTTGGGAGTCCAGAGCGGAACTTCACTCATCAGGTCTTTGCACGATGGTACC
GAGCACCAGAATTATTATTTGGCACCAAGCAGTATGGATCTGCAGTTGATATTTGGGCTGCTGG
TTGTATTTTTGCTGAACTGCTGCTTAGGCGACCGTTTCTCCAG
						
					

						Genomic sequence
						
							ACTGGGAATACAGTCGCAATAAAGAAAATCCGGCTAGGGAAGTACAAGGAAGGTGTCAATTTCA
CTGCATTGAGGGAAATTAAACTTCTTAAGGAGCTGAAAGATTCTAATATTATAGAGCTGATTGA
TGCTTTCCCTTACAAGGGAAACTTACATCTTGTATTTGAGTTCATGGAGACTGATTTGGAAGCT
GTCATACGAGATAGGAACATTGTATTATCTCCAGCTGATACAAAATCTTATATTCAGATGATGT
TAAAAGGTTTAGCCTTCTGCCATAAGAAATGGGTGCTACACAGGTATCCACTAATAATCTTGCT
AAATTTCTTTTAGAGAGAGTATCCTTTGACAATCTGTGCTGTAGGGATATGAAACCAAATAATT
TACTCATTGGCGCTGATGGGCAGCTTAAGCTTGCTGACTTTGGTCTGGCGCGCATATTTGGGAG
TCCAGAGCGGAACTTCACTCATCAGGTTCTTTTTTGTGGAATTATATTTATTAGAATTTAATTC
TCTGTATAATCTAGTCGATTGTATACTTGGAACTTGAGAATCTTGTTGCTGAAACAAATATGCA
ATGAACATTTCTTCAAGTGTATTGATGTTTCTTTTGTATTTTTTTAACTCGGTCGATATTGCTG
TTTGATGCTTCGTTGTTCTGTTTATCAAAAAGAACATCCTTGTGGATATTTTGCGCCCTTATGC
TTTACCCTTTTTTCAACAACAGTAGGCACCTAGGAAGTAGAAAAGCTTAAATCTTTATGGATGG
AACAAAATGCATGTGGGGAAGTTCTTATGTTATTTCCTGGACATTTGAGTTGGCAGAGTTGGAT
TTTGAATAAATGTCACAGGATACTGATTTCGGAAGTATGTGTCCTTGAATAACCATTTTCTTGG
TAAATATTAATAGTGTTGGAATGACTGTTTCATTCTGAATTATTTGTGCTGATTTTCATTCACC
ATCATATCTGGAGGTTCTCTTAAACCATCTTTTTATCAGTTATGTTGACGATAGTCAAGGATCA
ATGCTACACTTATTACAGCAATGCTGTGTGCTTTGCTTAAATGAGTGTTTTTTATTTTTTATTA
GTTTCACTTTGAATCATATTATCCTGATGCTGCTGGGCACTTCAGTTTTGAATTTTTTTTCTCA
ACATATAGGTCTTTGCACGATGGTACCGAGCACCAGAATTATTATTTGGCACCAAGCAGTATGG
ATCTGCAGTTGATATTTGGGCTGCTGGTTGTATTTTTGCTGAACTGCTGCTTAGGCGACCGTTT
CTCCAG
						
					

			
		

Sequences
Splice junction sequence	AGAATTATTATTTGGCACCAAGCAGTATGGATCTGCAGTTGATATTTGGGCTGCTGGTTGTATT TTTGCTGAACTGCTGCTTAGGCGACCGTTTCTCCAGactgggaatacagtcgcaataaagaaaa tccggctagggaagtacaaggaaggtgtcaatttcactgcattgagggaaattaaacttcttaa ggagctga
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: 491 Transcript exons: 19084959-19085257,19085366-19085431,19086119-19086244 ACTGGGAATACAGTCGCAATAAAGAAAATCCGGCTAGGGAAGTACAAGGAAGGTGTCAATTTCA CTGCATTGAGGGAAATTAAACTTCTTAAGGAGCTGAAAGATTCTAATATTATAGAGCTGATTGA TGCTTTCCCTTACAAGGGAAACTTACATCTTGTATTTGAGTTCATGGAGACTGATTTGGAAGCT GTCATACGAGATAGGAACATTGTATTATCTCCAGCTGATACAAAATCTTATATTCAGATGATGT TAAAAGGTTTAGCCTTCTGCCATAAGAAATGGGTGCTACACAGCTTAAGCTTGCTGACTTTGGT CTGGCGCGCATATTTGGGAGTCCAGAGCGGAACTTCACTCATCAGGTCTTTGCACGATGGTACC GAGCACCAGAATTATTATTTGGCACCAAGCAGTATGGATCTGCAGTTGATATTTGGGCTGCTGG TTGTATTTTTGCTGAACTGCTGCTTAGGCGACCGTTTCTCCAG
Genomic sequence	ACTGGGAATACAGTCGCAATAAAGAAAATCCGGCTAGGGAAGTACAAGGAAGGTGTCAATTTCA CTGCATTGAGGGAAATTAAACTTCTTAAGGAGCTGAAAGATTCTAATATTATAGAGCTGATTGA TGCTTTCCCTTACAAGGGAAACTTACATCTTGTATTTGAGTTCATGGAGACTGATTTGGAAGCT GTCATACGAGATAGGAACATTGTATTATCTCCAGCTGATACAAAATCTTATATTCAGATGATGT TAAAAGGTTTAGCCTTCTGCCATAAGAAATGGGTGCTACACAGGTATCCACTAATAATCTTGCT AAATTTCTTTTAGAGAGAGTATCCTTTGACAATCTGTGCTGTAGGGATATGAAACCAAATAATT TACTCATTGGCGCTGATGGGCAGCTTAAGCTTGCTGACTTTGGTCTGGCGCGCATATTTGGGAG TCCAGAGCGGAACTTCACTCATCAGGTTCTTTTTTGTGGAATTATATTTATTAGAATTTAATTC TCTGTATAATCTAGTCGATTGTATACTTGGAACTTGAGAATCTTGTTGCTGAAACAAATATGCA ATGAACATTTCTTCAAGTGTATTGATGTTTCTTTTGTATTTTTTTAACTCGGTCGATATTGCTG TTTGATGCTTCGTTGTTCTGTTTATCAAAAAGAACATCCTTGTGGATATTTTGCGCCCTTATGC TTTACCCTTTTTTCAACAACAGTAGGCACCTAGGAAGTAGAAAAGCTTAAATCTTTATGGATGG AACAAAATGCATGTGGGGAAGTTCTTATGTTATTTCCTGGACATTTGAGTTGGCAGAGTTGGAT TTTGAATAAATGTCACAGGATACTGATTTCGGAAGTATGTGTCCTTGAATAACCATTTTCTTGG TAAATATTAATAGTGTTGGAATGACTGTTTCATTCTGAATTATTTGTGCTGATTTTCATTCACC ATCATATCTGGAGGTTCTCTTAAACCATCTTTTTATCAGTTATGTTGACGATAGTCAAGGATCA ATGCTACACTTATTACAGCAATGCTGTGTGCTTTGCTTAAATGAGTGTTTTTTATTTTTTATTA GTTTCACTTTGAATCATATTATCCTGATGCTGCTGGGCACTTCAGTTTTGAATTTTTTTTCTCA ACATATAGGTCTTTGCACGATGGTACCGAGCACCAGAATTATTATTTGGCACCAAGCAGTATGG ATCTGCAGTTGATATTTGGGCTGCTGGTTGTATTTTTGCTGAACTGCTGCTTAGGCGACCGTTT CTCCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006224* osi_circ_015422 						
					
						PMCS
						0.331569343

Conservation Information
Conserved circRNAs	osi_circ_006224* osi_circ_015422
PMCS	0.331569343

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19085131-19084977(+)
19085244-19084977(+)
						
						Potential amino acid sequence
						
							METDLEAVIRDRNIVLSPADTKSYIQMMLKGLAFCHKKWVLHSLSLLTLVWRAYLGVQSGTSLI
RSLHDGTEHQNYYLAPSSMDLQLIFGLLVVFLLNCCLGDRFSRLGIQSQ*(+)
MGATQLKLADFGLARIFGSPERNFTHQVFARWYRAPELLFGTKQYGSAVDIWAAGCIFAELLLR
RPFLQTGNTVAIKKIRLGKYKEGVNFTALREIKLLKELKDSNIIELIDAFPYKGNLHLVFEFME
TDLEAVIRDRNIVLSPADTKSYIQMMLKGLAFCHKKWVLHSLSLLTLVWRAYLGVQSGTSLIRS
LHDGTEHQNYYLAPSSMDLQLIFGLLVVFLLNCCLGDRFSRLGIQSQ*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19085131-19084977(+) 19085244-19084977(+)
Potential amino acid sequence	METDLEAVIRDRNIVLSPADTKSYIQMMLKGLAFCHKKWVLHSLSLLTLVWRAYLGVQSGTSLI RSLHDGTEHQNYYLAPSSMDLQLIFGLLVVFLLNCCLGDRFSRLGIQSQ(+) MGATQLKLADFGLARIFGSPERNFTHQVFARWYRAPELLFGTKQYGSAVDIWAAGCIFAELLLR RPFLQTGNTVAIKKIRLGKYKEGVNFTALREIKLLKELKDSNIIELIDAFPYKGNLHLVFEFME TDLEAVIRDRNIVLSPADTKSYIQMMLKGLAFCHKKWVLHSLSLLTLVWRAYLGVQSGTSLIRS LHDGTEHQNYYLAPSSMDLQLIFGLLVVFLLNCCLGDRFSRLGIQSQ(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0392300_circ_g.2

Address

Any questions?

Supported by