Plant Circular RNA Database

Detail information of Os03g0431800_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0431800_circ_g.4
					
						ID in PlantcircBase
						osa_circ_020414
					
						Alias
						Os_ciR5339
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 18134094-18137104  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0431800						
					
						Parent gene annotation
						
							Conserved hypothetical protein. (Os03t0431800-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0431800_circ_igg.1 Os03g0431800_circ_g.1 Os03g0431800_circ_g.2 Os03g0431800_circ_g.3 Os03g0431800_circ_g.5 Os03g0431800_circ_g.6 Os03g0431800_circ_g.7 Os03g0431800_circ_g.8 Os03g0431800_circ_g.9 Os03g0431800_circ_g.10 Os03g0431800_circ_g.11 						
					
						Support reads
						3/3
					
						Tissues
						root/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
						Os03t0431800-00:5

General Information
CircRNA Name	Os03g0431800_circ_g.4
ID in PlantcircBase	osa_circ_020414
Alias	Os_ciR5339
Organism	Oryza sativa
Position	chr3: 18134094-18137104 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0431800
Parent gene annotation	Conserved hypothetical protein. (Os03t0431800-00)
Parent gene strand	+
Alternative splicing	Os03g0431800_circ_igg.1 Os03g0431800_circ_g.1 Os03g0431800_circ_g.2 Os03g0431800_circ_g.3 Os03g0431800_circ_g.5 Os03g0431800_circ_g.6 Os03g0431800_circ_g.7 Os03g0431800_circ_g.8 Os03g0431800_circ_g.9 Os03g0431800_circ_g.10 Os03g0431800_circ_g.11
Support reads	3/3
Tissues	root/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	Os03t0431800-00:5

			
						 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  
						
							TAATCTTTTGGCTTTGCTGACGTATTTGTTTTTGGATGTTTAGGGCCTTGAAATTGAGCAACAT
TTGCAAAGAAATGCACGAGTATTAGAGAAAAGACAGtgtgagaaagcaaaggagcgagaagaag
caattttacaaaagtttgccaaattcgaggaaaggtaccataatttcctattcaatttgtttga
taggtacc

									
								

					

						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
						
							TGTGAGAAAGCAAAGGAGCGAGAAGAAGCAATTTTACAAAAGTTTGCCAAATTCGAGGAAAGGT
ACCATAATTTCCTATTCAATTTGTTTGATAGGTACCCTAGATTTATTTGTATTTCTCCATTGGA
ATGATCTAGAGAGGTTTGGTTTTCATACTGGATGATGGAATTGATAGGATGGCGAAGTTTTGCT
ATGTTTTCCTGCCAGTAACTTGATAGCAAGAATGTGCAGAAATTAATAGGTAGCAATTTTGCTC
TAAGATCATGACCTCTCGCCAGTAACTACTACTATTTTTTTGGTTTCTTTTCTTTTTCAGTATA
TTAGTTGTCATGCATATATTAGTTTTTGGTAATAAAATATTACTAGCTATGACTGCAGCAATCT
AAAGGACTGAAATGTATTTCAAGCGTGTGAAGAAGTATATGGCTAGTCTTGTTAAAGTATGGGT
TCTGTATCTTAGTTATTTCATTAAGAAGAACGAGAGTACAAGACCTACAGATTTTTGGCAGGGA
AAATGGAGTTTTATAGGGCTGCTGCTTAAATCTTCCCCTATTTTTGCTATGGCCTTTTTTTTAA
GCATATGGTTTATCACTTTGTGCTTTTTCCCTCTGCTTTTGTTAATCCCTAAAGTTTATTGTTG
GATTATTTCATGTATTTTATTTTTGCATTGTTGTGTCTTTTAAACATTTCAGCAATTGTAAGTG
GAATGCTAACTTGATGTTTTAAAAGCTATTCTCATTATGCTAAACTTGCCTGCACAAGTTTCTG
ACGAGTGCAATGTATCGTAATGATTACTTATTGGCAGGACAAGAGAATATCAATCATCAATTGA
TGATCAGAAACGGTCAAACGATGCCTTACAAATGGAGCTGATGAGGCTTAAAGAGCAGACACAA
TCTTCCTTGAAAGTATGTAATTTTGTCCATTAGTGCGGTAGTGCCAATATCATATATCAGGAAA
TTCGTGCAACAACTTACGTCCAAAATCTTGGCAGTAACCTTGTTCTAGAAGACTGCTAATCCAG
GGTGTGGGTGCTGAGATTTCTGGCAAAACCGATATTCAGAACCTTGAGAACAACTGATATATAC
CCAACCTAAAAACCAAGCAGAAATCTATGCCACCATATACCCAACTAAACAATGAAGTTGGTCA
ATGTCATCCAGCAGCAACCTATTCAGGCGAACCAGCATCACATACAGTTTCAACATCATTCCAC
CAACCAAGCACCCGCCTTAATATGTTAAATCTAGGATTTAAGTATTCATGCCTTTTCTTCTTCC
AACCTTATAGTGTAAATTGATTTAAGCAGGACTATTATAGTATTGTACTATAAAAATAATCACG
ATCAACTCCTGAGTAGAAAATAAGATTCTTCCCCTTTTAAAAAAATGAAAATAAAATAAAATTC
TTCACAGCATATTTCTTTCTGATCTATGGTGTTATTTATACTATCATACACCTCCAAGGTATAT
ACTCTTTAAAATTCTAGATCATTTCTGGTACTCTGGGGTTCCCTAACTAGGGTGCTTCAGACTA
AGCAAAACAAATGCAAATATCCATTAAAATTCTCAAAAGAGTTAGTTGCATGGAGTATGGTTTA
ATTGACTATTCCACTAAATTTCAAATATAAATTTGATCCGCACATTGAGAAACGAAAAGGACAG
ACATGTGACCAAATTTATGTTTTATTTAGCACTTTCTTTTCAGCATAATTTGTTGTATTTTGTT
TCTCAATGTGTAGATCGAATTTACGTTTGAAATTTTGTGGGCTGATGAATGGAAGTACTCTATG
CTATCAAATTTGTTCCTAATTATTCATTACATTCCGAATGGATTTTTATGGTATGGTGCACCTT
AGTTGGGGTGCTCCATTGAGCAATAGAATCTTCTTATTTTAATCGATAATAAAGGGTATGTTTG
GCACGGCTTTAGCTCCAACTCTACCTCTCCTGGAGCTAGAGCCCCACCAAACAGTTTCAGCTCC
ACCTAAAATGGTAGTGGAGCTGGTTGGAGCGCTCTCACAAAATGAACTAGAGAGGTGGAGCTGG
GTTTAGGCAGCTCGACAACTTCACTCCAGACTCAATTCATAGAGTTAAATTTAGGAGTTGGAGC
TCTACCAAACAGGCCTAAAATGTGATCTATCCTGTCTTAGTTAATGTGGAAATCCTTTGTAACA
CATGAATATACATTAGTTAATGTGGAATTAATGCTAGATTCTGTTTCAGGTTATTCAAAAATTT
TATGATGTTCGTTGTAGAGACTCTGAATGCTCTGTGAACATTACTCTTGAAGAAAAATGTTCAG
TTCTTCTGGACGATTCTGCTGATAATTGGAGTTTCAGCTCAGATGGAGGAACCTCAACTTCGAA
GTACATTGTAAACTTAAAGCCCTTTATCCATTTCAATAATTGAATTCAAATTGAGTTATTACAC
ATCTATGAATTGTTTGATTCTATATCCACTATTTAGGAGACATTTATCCTGGCGTACGCTCCAA
TTCTATGGTGAAAATAGTGCAAAAATGAGGGCCATGTTGATACTCTCTCTTTTTTTCTCTTTTT
AGAGGCATTTATGCTTTGATCTTAAGCTTTCTTATATAACCCCCTTTGTATACATACTACTCGG
ATACTTGATGATTGTGGTGTTAAACAACTTTGCTTTTTCTAATTTGTTAAGTTAAATTATGCTA
CAGTTTTCAATTTGTTCTTTGACAAAGGATGCAAAGTCTAAAATGACTTACATTCAGAATTAGA
GGCAGTAGTTTGTAAGAACATGCCCCATTGGCTAAGTAACTATTCTTTTTTATAGGCATCTCTA
GAAGAAGAGAAAGATTCACTGAGAGCTAAAATAGCTAAGCTTCAAAACAATCTAAGAATGGTAA
GACGATTTTTTTTTAAATGGTAGGAGAAGCGTAATCTTTTGGCTTTGCTGACGTATTTGTTTTT
GGATGTTTAGGGCCTTGAAATTGAGCAACATTTGCAAAGAAATGCACGAGTATTAGAGAAAAGA
CAG
						
					

			
		

Sequences
Splice junction sequence	TAATCTTTTGGCTTTGCTGACGTATTTGTTTTTGGATGTTTAGGGCCTTGAAATTGAGCAACAT TTGCAAAGAAATGCACGAGTATTAGAGAAAAGACAGtgtgagaaagcaaaggagcgagaagaag caattttacaaaagtttgccaaattcgaggaaaggtaccataatttcctattcaatttgtttga taggtacc
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	TGTGAGAAAGCAAAGGAGCGAGAAGAAGCAATTTTACAAAAGTTTGCCAAATTCGAGGAAAGGT ACCATAATTTCCTATTCAATTTGTTTGATAGGTACCCTAGATTTATTTGTATTTCTCCATTGGA ATGATCTAGAGAGGTTTGGTTTTCATACTGGATGATGGAATTGATAGGATGGCGAAGTTTTGCT ATGTTTTCCTGCCAGTAACTTGATAGCAAGAATGTGCAGAAATTAATAGGTAGCAATTTTGCTC TAAGATCATGACCTCTCGCCAGTAACTACTACTATTTTTTTGGTTTCTTTTCTTTTTCAGTATA TTAGTTGTCATGCATATATTAGTTTTTGGTAATAAAATATTACTAGCTATGACTGCAGCAATCT AAAGGACTGAAATGTATTTCAAGCGTGTGAAGAAGTATATGGCTAGTCTTGTTAAAGTATGGGT TCTGTATCTTAGTTATTTCATTAAGAAGAACGAGAGTACAAGACCTACAGATTTTTGGCAGGGA AAATGGAGTTTTATAGGGCTGCTGCTTAAATCTTCCCCTATTTTTGCTATGGCCTTTTTTTTAA GCATATGGTTTATCACTTTGTGCTTTTTCCCTCTGCTTTTGTTAATCCCTAAAGTTTATTGTTG GATTATTTCATGTATTTTATTTTTGCATTGTTGTGTCTTTTAAACATTTCAGCAATTGTAAGTG GAATGCTAACTTGATGTTTTAAAAGCTATTCTCATTATGCTAAACTTGCCTGCACAAGTTTCTG ACGAGTGCAATGTATCGTAATGATTACTTATTGGCAGGACAAGAGAATATCAATCATCAATTGA TGATCAGAAACGGTCAAACGATGCCTTACAAATGGAGCTGATGAGGCTTAAAGAGCAGACACAA TCTTCCTTGAAAGTATGTAATTTTGTCCATTAGTGCGGTAGTGCCAATATCATATATCAGGAAA TTCGTGCAACAACTTACGTCCAAAATCTTGGCAGTAACCTTGTTCTAGAAGACTGCTAATCCAG GGTGTGGGTGCTGAGATTTCTGGCAAAACCGATATTCAGAACCTTGAGAACAACTGATATATAC CCAACCTAAAAACCAAGCAGAAATCTATGCCACCATATACCCAACTAAACAATGAAGTTGGTCA ATGTCATCCAGCAGCAACCTATTCAGGCGAACCAGCATCACATACAGTTTCAACATCATTCCAC CAACCAAGCACCCGCCTTAATATGTTAAATCTAGGATTTAAGTATTCATGCCTTTTCTTCTTCC AACCTTATAGTGTAAATTGATTTAAGCAGGACTATTATAGTATTGTACTATAAAAATAATCACG ATCAACTCCTGAGTAGAAAATAAGATTCTTCCCCTTTTAAAAAAATGAAAATAAAATAAAATTC TTCACAGCATATTTCTTTCTGATCTATGGTGTTATTTATACTATCATACACCTCCAAGGTATAT ACTCTTTAAAATTCTAGATCATTTCTGGTACTCTGGGGTTCCCTAACTAGGGTGCTTCAGACTA AGCAAAACAAATGCAAATATCCATTAAAATTCTCAAAAGAGTTAGTTGCATGGAGTATGGTTTA ATTGACTATTCCACTAAATTTCAAATATAAATTTGATCCGCACATTGAGAAACGAAAAGGACAG ACATGTGACCAAATTTATGTTTTATTTAGCACTTTCTTTTCAGCATAATTTGTTGTATTTTGTT TCTCAATGTGTAGATCGAATTTACGTTTGAAATTTTGTGGGCTGATGAATGGAAGTACTCTATG CTATCAAATTTGTTCCTAATTATTCATTACATTCCGAATGGATTTTTATGGTATGGTGCACCTT AGTTGGGGTGCTCCATTGAGCAATAGAATCTTCTTATTTTAATCGATAATAAAGGGTATGTTTG GCACGGCTTTAGCTCCAACTCTACCTCTCCTGGAGCTAGAGCCCCACCAAACAGTTTCAGCTCC ACCTAAAATGGTAGTGGAGCTGGTTGGAGCGCTCTCACAAAATGAACTAGAGAGGTGGAGCTGG GTTTAGGCAGCTCGACAACTTCACTCCAGACTCAATTCATAGAGTTAAATTTAGGAGTTGGAGC TCTACCAAACAGGCCTAAAATGTGATCTATCCTGTCTTAGTTAATGTGGAAATCCTTTGTAACA CATGAATATACATTAGTTAATGTGGAATTAATGCTAGATTCTGTTTCAGGTTATTCAAAAATTT TATGATGTTCGTTGTAGAGACTCTGAATGCTCTGTGAACATTACTCTTGAAGAAAAATGTTCAG TTCTTCTGGACGATTCTGCTGATAATTGGAGTTTCAGCTCAGATGGAGGAACCTCAACTTCGAA GTACATTGTAAACTTAAAGCCCTTTATCCATTTCAATAATTGAATTCAAATTGAGTTATTACAC ATCTATGAATTGTTTGATTCTATATCCACTATTTAGGAGACATTTATCCTGGCGTACGCTCCAA TTCTATGGTGAAAATAGTGCAAAAATGAGGGCCATGTTGATACTCTCTCTTTTTTTCTCTTTTT AGAGGCATTTATGCTTTGATCTTAAGCTTTCTTATATAACCCCCTTTGTATACATACTACTCGG ATACTTGATGATTGTGGTGTTAAACAACTTTGCTTTTTCTAATTTGTTAAGTTAAATTATGCTA CAGTTTTCAATTTGTTCTTTGACAAAGGATGCAAAGTCTAAAATGACTTACATTCAGAATTAGA GGCAGTAGTTTGTAAGAACATGCCCCATTGGCTAAGTAACTATTCTTTTTTATAGGCATCTCTA GAAGAAGAGAAAGATTCACTGAGAGCTAAAATAGCTAAGCTTCAAAACAATCTAAGAATGGTAA GACGATTTTTTTTTAAATGGTAGGAGAAGCGTAATCTTTTGGCTTTGCTGACGTATTTGTTTTT GGATGTTTAGGGCCTTGAAATTGAGCAACATTTGCAAAGAAATGCACGAGTATTAGAGAAAAGA CAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.204451804

Conservation Information
Conserved circRNAs	NA
PMCS	0.204451804

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18134958-18137101(+)
18134920-18136946(-)
						
						Potential amino acid sequence
						
							MELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKY
IASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQCEKAKEREEAILQKFAKFEER
TREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLD
DSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQCE
KAKEREEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCR
DSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGL
EIEQHLQRNARVLEKRQCEKAKEREEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLK
EQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEE
KDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQ(+)
MIDILLSFPRIWQTFVKLLLLAPLLSHTVFSLILVHFFANVAQFQGPFLDCFEA*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18134958-18137101(+) 18134920-18136946(-)
Potential amino acid sequence	MELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKY IASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQCEKAKEREEAILQKFAKFEER TREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLD DSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQCE KAKEREEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLKEQTQSSLKVIQKFYDVRCR DSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEEKDSLRAKIAKLQNNLRMGL EIEQHLQRNARVLEKRQCEKAKEREEAILQKFAKFEERTREYQSSIDDQKRSNDALQMELMRLK EQTQSSLKVIQKFYDVRCRDSECSVNITLEEKCSVLLDDSADNWSFSSDGGTSTSKYIASLEEE KDSLRAKIAKLQNNLRMGLEIEQHLQRNARVLEKRQ(+) MIDILLSFPRIWQTFVKLLLLAPLLSHTVFSLILVHFFANVAQFQGPFLDCFEA*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os03g0431800_circ_g.4

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