Plant Circular RNA Database

Detail information of Os04g0502900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os04g0502900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_024472
					
						Alias
						Os_ciR5430
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 25112072-25113576  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os04g0502900						
					
						Parent gene annotation
						
							EF-Hand type domain containing protein. (Os04t0502900-01);Simila
r to OSIGBa0112M24.3 protein. (Os04t0502900-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os04g0502900_circ_g.1 Os04g0502900_circ_g.3 Os04g0502900_circ_g.4 Os04g0502900_circ_g.5 Os04g0502900_circ_g.6 Os04g0502900_circ_g.7 						
					
						Support reads
						3
					
						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
						Os04t0502900-02:2
Os04t0502900-01:4

General Information
CircRNA Name	Os04g0502900_circ_g.2
ID in PlantcircBase	osa_circ_024472
Alias	Os_ciR5430
Organism	Oryza sativa
Position	chr4: 25112072-25113576 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os04g0502900
Parent gene annotation	EF-Hand type domain containing protein. (Os04t0502900-01);Simila r to OSIGBa0112M24.3 protein. (Os04t0502900-02)
Parent gene strand	+
Alternative splicing	Os04g0502900_circ_g.1 Os04g0502900_circ_g.3 Os04g0502900_circ_g.4 Os04g0502900_circ_g.5 Os04g0502900_circ_g.6 Os04g0502900_circ_g.7
Support reads	3
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	Os04t0502900-02:2 Os04t0502900-01:4

			
						 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  
						
							GGAAAATGGTGGAGTGGTTGAATACTTCTTTGGTAATGATGGGAACGAACCTCTACACTATGAC
AAGTTTACAAATTTTTTGAAAGGATTGCATGACGAGactcgttccgcagaagggtgttcttcaa
ttacgagaaacggatacggctgctcagccctcctgaaaaggtaattaatttggttcattaagtg
taaaaccc

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							ACTCGTTCCGCAGAAGGGTGTTCTTCAATTACGAGAAACGGATACGGCTGCTCAGCCCTCCTGA
AAAGGTAATTAATTTGGTTCATTAAGTGTAAAACCCGCTTAATTTGTGTTGGTCGGCTTGTGGT
ATCCTAATTCAGGTGTTTCTGCGAGTAGATCTTTGAATATTTCGCGTCTGTGCGGAACCCGGAA
GGGGAAGTATTCATGTTGCCTGCTGACTTGATGAGAGCAGTAGTTCCTGTTTTCCCTCCATCGG
AGTCGAACATAGTTCGGGAGGGAAGATTAAGGGGGGAACGCAATCCTGGAGAGTTGCACTGTGC
TCCATCGGAGTTCTTCATGCTGTTTGACACAAACGGTGATAGGCTCATCTCCTTTGCCGAGTAA
GTGTATTTTATCCACACTAGGTGTAATACTTAAATCACTTGAGTGTTTTCAGAATGTTTCAATT
AAAGGGTTTTAACTTTTTCCTAAATACTGCCGCTGGGATCTTTGCATGATTCCCTTTGAGACTT
ATAGATGAAGATCCCTTGGGTCAATATCATAAATATTTGCACCCTATTTTATCATTGGCTTAGG
TTCAATTTCTAAGTAGGCTTGATGCTGATTATGCTTATGGTGGTTTTCTAGGTACATCTTTTTT
GTGACATTGCTCAGCATCCCTGAGTCAAGTTTCAGTGCGGCCTTCAAAATGTTTGACGTTGACC
ACAGCGGGTGAGTTCTATTTCTACTATCGCACTTGTTCTAGCAACATGTCTTGCTGTCAGAATG
ATATGCATCTGCTCGGTACCTCATATTGCCCTGTTTCTAGTATTACTAGTCTTGGTCTAGTAAT
ATGACCCTGCTGCTAGAATGATGATATGCATCTGCCATATAACTGTTCTTTAATTAATAAACCT
GATATGTTTGCATGTTTAACAACATCACCACATCTGTTAGTTAATGGTAAAAACAATAGGTTAC
TGTATATACCATTTTTGGTGGTTTAGTTCAGCATTCCTTTTCTTTTCATGTGTACACCTTTTAT
TACTGAAGCTGCTAAAGGTATGTTTCCTTTTGTGCTCTTGGATTTGTGCATAAACAAGGACACG
TTTAAATATTGCCTTTGTTTGTGCTATATTGTTGTTTACCTGTGACCATTCGCATGCAGTTAAT
TTCTCTTCTCGTCCAGAAAAGACCAGCTCTTTATGAGCATCTGACTTGTTAGTTGATGGTAAAA
GAAGGGTATGAACAAATTTTGGCCAGCTTATTCTCTGTTATTTTGTTGTCCTTATCTGTTACTT
GTCATTTTCAGGGAGATAGACAAAGAAGAGTTCAAGAAAGTAATGGCACTGATGCGATCCTATA
ACAGACAAGGAGCCAACCATAGAGATGGCTTACGTACTGGACTAAAAGTTGGTCAGCCTGTGGA
AAATGGTGGAGTGGTTGAATACTTCTTTGGTAATGATGGGAACGAACCTCTACACTATGACAAG
TTTACAAATTTTTTGAAAGGATTGCATGACGAG
						
					

			
		

Sequences
Splice junction sequence	GGAAAATGGTGGAGTGGTTGAATACTTCTTTGGTAATGATGGGAACGAACCTCTACACTATGAC AAGTTTACAAATTTTTTGAAAGGATTGCATGACGAGactcgttccgcagaagggtgttcttcaa ttacgagaaacggatacggctgctcagccctcctgaaaaggtaattaatttggttcattaagtg taaaaccc
Assembled circRNA sequence	NA 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	NA
Genomic sequence	ACTCGTTCCGCAGAAGGGTGTTCTTCAATTACGAGAAACGGATACGGCTGCTCAGCCCTCCTGA AAAGGTAATTAATTTGGTTCATTAAGTGTAAAACCCGCTTAATTTGTGTTGGTCGGCTTGTGGT ATCCTAATTCAGGTGTTTCTGCGAGTAGATCTTTGAATATTTCGCGTCTGTGCGGAACCCGGAA GGGGAAGTATTCATGTTGCCTGCTGACTTGATGAGAGCAGTAGTTCCTGTTTTCCCTCCATCGG AGTCGAACATAGTTCGGGAGGGAAGATTAAGGGGGGAACGCAATCCTGGAGAGTTGCACTGTGC TCCATCGGAGTTCTTCATGCTGTTTGACACAAACGGTGATAGGCTCATCTCCTTTGCCGAGTAA GTGTATTTTATCCACACTAGGTGTAATACTTAAATCACTTGAGTGTTTTCAGAATGTTTCAATT AAAGGGTTTTAACTTTTTCCTAAATACTGCCGCTGGGATCTTTGCATGATTCCCTTTGAGACTT ATAGATGAAGATCCCTTGGGTCAATATCATAAATATTTGCACCCTATTTTATCATTGGCTTAGG TTCAATTTCTAAGTAGGCTTGATGCTGATTATGCTTATGGTGGTTTTCTAGGTACATCTTTTTT GTGACATTGCTCAGCATCCCTGAGTCAAGTTTCAGTGCGGCCTTCAAAATGTTTGACGTTGACC ACAGCGGGTGAGTTCTATTTCTACTATCGCACTTGTTCTAGCAACATGTCTTGCTGTCAGAATG ATATGCATCTGCTCGGTACCTCATATTGCCCTGTTTCTAGTATTACTAGTCTTGGTCTAGTAAT ATGACCCTGCTGCTAGAATGATGATATGCATCTGCCATATAACTGTTCTTTAATTAATAAACCT GATATGTTTGCATGTTTAACAACATCACCACATCTGTTAGTTAATGGTAAAAACAATAGGTTAC TGTATATACCATTTTTGGTGGTTTAGTTCAGCATTCCTTTTCTTTTCATGTGTACACCTTTTAT TACTGAAGCTGCTAAAGGTATGTTTCCTTTTGTGCTCTTGGATTTGTGCATAAACAAGGACACG TTTAAATATTGCCTTTGTTTGTGCTATATTGTTGTTTACCTGTGACCATTCGCATGCAGTTAAT TTCTCTTCTCGTCCAGAAAAGACCAGCTCTTTATGAGCATCTGACTTGTTAGTTGATGGTAAAA GAAGGGTATGAACAAATTTTGGCCAGCTTATTCTCTGTTATTTTGTTGTCCTTATCTGTTACTT GTCATTTTCAGGGAGATAGACAAAGAAGAGTTCAAGAAAGTAATGGCACTGATGCGATCCTATA ACAGACAAGGAGCCAACCATAGAGATGGCTTACGTACTGGACTAAAAGTTGGTCAGCCTGTGGA AAATGGTGGAGTGGTTGAATACTTCTTTGGTAATGATGGGAACGAACCTCTACACTATGACAAG TTTACAAATTTTTTGAAAGGATTGCATGACGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.163025321

Conservation Information
Conserved circRNAs	NA
PMCS	0.163025321

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25113570-25112132(+)
25112277-25112291(+)
						
						Potential amino acid sequence
						
							MTRLVPQKGVLQLRETDTAAQPS*(+)
MLPADLMRAVVPVFPPSESNIVREGRLRGERNPGELHCAPSEFFMLFDTNGDRLISFAEYIFFV
TLLSIPESSFSAAFKMFDVDHSGEIDKEEFKKVMALMRSYNRQGANHRDGLRTGLKVGQPVENG
GVVEYFFGNDGNEPLHYDKFTNFLKGLHDETRSAEGCSSITRNGYGCSALLKRSLNISRLCGTR
KGKYSCCLLT*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25113570-25112132(+) 25112277-25112291(+)
Potential amino acid sequence	MTRLVPQKGVLQLRETDTAAQPS(+) MLPADLMRAVVPVFPPSESNIVREGRLRGERNPGELHCAPSEFFMLFDTNGDRLISFAEYIFFV TLLSIPESSFSAAFKMFDVDHSGEIDKEEFKKVMALMRSYNRQGANHRDGLRTGLKVGQPVENG GVVEYFFGNDGNEPLHYDKFTNFLKGLHDETRSAEGCSSITRNGYGCSALLKRSLNISRLCGTR KGKYSCCLLT(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os04g0502900_circ_g.2

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