Plant Circular RNA Database

Detail information of Os03g0213300_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0213300_circ_g.2
					
						ID in PlantcircBase
						osa_circ_018501
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 5909753-5912404  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0213300						
					
						Parent gene annotation
						
							Phosphopantetheine attachment site domain containing protein. (O
s03t0213300-01);Hypothetical conserved gene. (Os03t0213300-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0213300_circ_g.3 Os03g0213300_circ_g.4 Os03g0213300_circ_g.5 						
					
						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
						Os03t0213300-01:2

General Information
CircRNA Name	Os03g0213300_circ_g.2
ID in PlantcircBase	osa_circ_018501
Alias	NA
Organism	Oryza sativa
Position	chr3: 5909753-5912404 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0213300
Parent gene annotation	Phosphopantetheine attachment site domain containing protein. (O s03t0213300-01);Hypothetical conserved gene. (Os03t0213300-02)
Parent gene strand	+
Alternative splicing	Os03g0213300_circ_g.3 Os03g0213300_circ_g.4 Os03g0213300_circ_g.5
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	Os03t0213300-01:2

			
						 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  
						
							AGGAGCAATTTAAATCTCGACATGTTCCAAATAGCTCCAGTTCACCACCCTTTGGAGGATCTGA
TGCTGGCCTGCCTCAAAATCGAGCAGTTCAAAACAGgctacggaaaaataagaggccggtttca
ggttgctttcagcttgaattctgctttattggttgagggttacccttccgtgttagctgtaata
tcagtggg

									
								

					

						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
						
							GCTACGGAAAAATAAGAGGCCGGTTTCAGGTTGCTTTCAGCTTGAATTCTGCTTTATTGGTTGA
GGGTTACCCTTCCGTGTTAGCTGTAATATCAGTGGGATCATCCTCATCATCCTGAACCTGACAG
ATCTAAGAGCTGCATGTAGTGTCGTTTGATATGAAACTTTGGGGTTTGCATATTGCCGACGCCT
TACGTTTTCACGTGCATTAGACCCACAGTAATACGTTGGGAATGTCACAGTTTCACCCTACTCA
GCATGGAGGTGATAGTGATTTTCAGGTGTGGCAACAACAGATGATGTACAAGCAATTGCAAGAG
TTTCAGAGACAGCAGCAGGTACAACAGCTTGATCATGGAGCCAGGATGCAACCCTCTTTTGGTC
AGTTTCAAGCTCCTGCAAAACCACTTCCAACTGATCAACTCTCGGCAATGACGAATGAAATGCC
AAACAATGAATCTACAGCTTATGCATGGTCACATCAACTACATGGTAGTAGTGACCCAGGGTTG
GCAAGCAATTCTCAAATGTTGAATCCTAGCAGTAACACAAATTGGGAGCAATATGGTGGTGCTC
CTGGTGTAGCCAATTTTGTAAACGGTTCAATGTTTTCAAACACTCCGATTCAGCCCATGAGACC
GATGGGATTAGCTGCACACCAAATGAACCCATCTTTATATCCAATAAATACTACCAGCAGAGAT
GGATCTGGAAATCAGCACTCTCAGTTCTTAGGGATCCCAACTGATCCACGGAATGCAATGGCAA
GGGCAGCAGCACATCAGTCCGAAAAGGCATCGATGCAATTTAGCTCTTTAATGAGTGAACAAGG
TCCATCCAGCTCTATGCAAAATTTCCTTGGGAAGGTAGGTGATAATATTAAGGTGGGCACCCCT
GTTCCAGTAAATCATCTACAACATGGTGTTCAACACCAAGATTTTCATGGTAGGCCAAACCAAG
TTGATTTTCAAGCAGGCCTGCGTGAAAAATCAACAATGCAGGTAGAGTCAGGAAATGGTGGTGC
TAGCCTTGATCCTACCGAGGAGAAGTTCCTATTTGGCAATGACGAGGATAGCAACTGGGGAGCT
CTGTTGAGGGGTGGCAACGATCATGGCAGTTCTATGGATAATGACAACTTTGGTGGAGCTCTGC
CATCTCTCCAGAGTGGGAGCTGGAGCGCCCTTATGCAGGAAGCACTACAGTCTACAACCAGTGA
CAACAGTCCCAAGGAAGAATGGAGCGGCTTGAGCTTCCAGAAACAAGAACAAATTATAGCCAAC
AATTCAACCTTGCAAAGTCATGACCAGAATAAATTTTCAGCATTGAGTGGTGCCAATCTAGAAA
ATCAACGGCCTTCATCAGCTTCTAGCTACGGTGATGGAACAATGCATAATCCAAATTTTGCTGG
TTTTCAGCATGCTGCAAGAACTCCTTATGAGCAAAGGGACAGAATGCAACATGATTCTTCTAAT
GCCACTGGTACCAATCATCAATCAACTGCAGGAGTCAATAATGGATATTTTCAGCAGAGCATGA
AACAAAAGCAATCTGATGATTACAGTAGACAAGAACAAATGAACGCATCAAATGGCATTTGGGC
ACACCAGAAACCTGAAATGCCAAGAAATAATTCACACTCATCTGGTGGACATGCTACACCACCA
AGTGCACATGGATTTTGGATGTCCCAACAAAACAGTATTGATCATAATATCAGCAGAGAGTCTG
GTAGCACCCAAAATGACTGGAAAAGCAAGGCCCCCCTTGTACAGGACATCAACAGTACCCCAAA
CGTCTTTAATAATGATGGGAGCTTTTGGAAGTCTAGTGGAGGCAATGCAAATTCAGTCCACAGG
CCTCAACAGATGAAGCCTGATATAAGCACCATGCAAATGCCAAATGACAGTTCGGACGGTAAAA
GCACTAGTGCGATGGGCTCAAACATGCCAACTTTAAATCAGGATCAGTATCAATCCATTATTGG
TCGAACTGGTGAACATGTTGGGCAAAACCATAATATGGGACGTAAGGGTCCAGAGATTACAGGA
TCACTAGGAAGAGGTGCAGAGCAAAAGTCAAATGACCACAACCAGGATTACCTAAATGTGCTCC
CTACTGAAAGGCAAGGGCATGGTTCAAATCATGGACAACATGTGAGCAGTGATTTTGCTACCAG
GAGGCATCCTTTCTTTGCTGGAAAAGAATCCCAAAATTTGGGTCAATCTGGTCAGCAAGCAATG
GGATCATACATGTTGCAGAATCATGCCATGGATAACTCAGGAATGAACATTAGGCATTCTTCAG
GCAATCCAGTGCCTAATCAGTTTCCATCTCAGTCGCATCAGTTGCATAATAACCTGAAACCTCG
ATTCATTCCTAGCTCCCAGGCTTCGAGTAATATGGCTTCAGTAAATGAGGTATGCCTGCCAACT
TCATGTACATAATGAAGAGTATTGTTATTTTTGTTTGAATACATTTTATTAATGTACTTTTAGT
CTGTTTATTCGTCTTATTTATGAAGTAATTTCCTTTTTAGAAAATGCTGATGAGAGAGGAGCAA
TTTAAATCTCGACATGTTCCAAATAGCTCCAGTTCACCACCCTTTGGAGGATCTGATGCTGGCC
TGCCTCAAAATCGAGCAGTTCAAAACAG
						
					

			
		

Sequences
Splice junction sequence	AGGAGCAATTTAAATCTCGACATGTTCCAAATAGCTCCAGTTCACCACCCTTTGGAGGATCTGA TGCTGGCCTGCCTCAAAATCGAGCAGTTCAAAACAGgctacggaaaaataagaggccggtttca ggttgctttcagcttgaattctgctttattggttgagggttacccttccgtgttagctgtaata tcagtggg
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	GCTACGGAAAAATAAGAGGCCGGTTTCAGGTTGCTTTCAGCTTGAATTCTGCTTTATTGGTTGA GGGTTACCCTTCCGTGTTAGCTGTAATATCAGTGGGATCATCCTCATCATCCTGAACCTGACAG ATCTAAGAGCTGCATGTAGTGTCGTTTGATATGAAACTTTGGGGTTTGCATATTGCCGACGCCT TACGTTTTCACGTGCATTAGACCCACAGTAATACGTTGGGAATGTCACAGTTTCACCCTACTCA GCATGGAGGTGATAGTGATTTTCAGGTGTGGCAACAACAGATGATGTACAAGCAATTGCAAGAG TTTCAGAGACAGCAGCAGGTACAACAGCTTGATCATGGAGCCAGGATGCAACCCTCTTTTGGTC AGTTTCAAGCTCCTGCAAAACCACTTCCAACTGATCAACTCTCGGCAATGACGAATGAAATGCC AAACAATGAATCTACAGCTTATGCATGGTCACATCAACTACATGGTAGTAGTGACCCAGGGTTG GCAAGCAATTCTCAAATGTTGAATCCTAGCAGTAACACAAATTGGGAGCAATATGGTGGTGCTC CTGGTGTAGCCAATTTTGTAAACGGTTCAATGTTTTCAAACACTCCGATTCAGCCCATGAGACC GATGGGATTAGCTGCACACCAAATGAACCCATCTTTATATCCAATAAATACTACCAGCAGAGAT GGATCTGGAAATCAGCACTCTCAGTTCTTAGGGATCCCAACTGATCCACGGAATGCAATGGCAA GGGCAGCAGCACATCAGTCCGAAAAGGCATCGATGCAATTTAGCTCTTTAATGAGTGAACAAGG TCCATCCAGCTCTATGCAAAATTTCCTTGGGAAGGTAGGTGATAATATTAAGGTGGGCACCCCT GTTCCAGTAAATCATCTACAACATGGTGTTCAACACCAAGATTTTCATGGTAGGCCAAACCAAG TTGATTTTCAAGCAGGCCTGCGTGAAAAATCAACAATGCAGGTAGAGTCAGGAAATGGTGGTGC TAGCCTTGATCCTACCGAGGAGAAGTTCCTATTTGGCAATGACGAGGATAGCAACTGGGGAGCT CTGTTGAGGGGTGGCAACGATCATGGCAGTTCTATGGATAATGACAACTTTGGTGGAGCTCTGC CATCTCTCCAGAGTGGGAGCTGGAGCGCCCTTATGCAGGAAGCACTACAGTCTACAACCAGTGA CAACAGTCCCAAGGAAGAATGGAGCGGCTTGAGCTTCCAGAAACAAGAACAAATTATAGCCAAC AATTCAACCTTGCAAAGTCATGACCAGAATAAATTTTCAGCATTGAGTGGTGCCAATCTAGAAA ATCAACGGCCTTCATCAGCTTCTAGCTACGGTGATGGAACAATGCATAATCCAAATTTTGCTGG TTTTCAGCATGCTGCAAGAACTCCTTATGAGCAAAGGGACAGAATGCAACATGATTCTTCTAAT GCCACTGGTACCAATCATCAATCAACTGCAGGAGTCAATAATGGATATTTTCAGCAGAGCATGA AACAAAAGCAATCTGATGATTACAGTAGACAAGAACAAATGAACGCATCAAATGGCATTTGGGC ACACCAGAAACCTGAAATGCCAAGAAATAATTCACACTCATCTGGTGGACATGCTACACCACCA AGTGCACATGGATTTTGGATGTCCCAACAAAACAGTATTGATCATAATATCAGCAGAGAGTCTG GTAGCACCCAAAATGACTGGAAAAGCAAGGCCCCCCTTGTACAGGACATCAACAGTACCCCAAA CGTCTTTAATAATGATGGGAGCTTTTGGAAGTCTAGTGGAGGCAATGCAAATTCAGTCCACAGG CCTCAACAGATGAAGCCTGATATAAGCACCATGCAAATGCCAAATGACAGTTCGGACGGTAAAA GCACTAGTGCGATGGGCTCAAACATGCCAACTTTAAATCAGGATCAGTATCAATCCATTATTGG TCGAACTGGTGAACATGTTGGGCAAAACCATAATATGGGACGTAAGGGTCCAGAGATTACAGGA TCACTAGGAAGAGGTGCAGAGCAAAAGTCAAATGACCACAACCAGGATTACCTAAATGTGCTCC CTACTGAAAGGCAAGGGCATGGTTCAAATCATGGACAACATGTGAGCAGTGATTTTGCTACCAG GAGGCATCCTTTCTTTGCTGGAAAAGAATCCCAAAATTTGGGTCAATCTGGTCAGCAAGCAATG GGATCATACATGTTGCAGAATCATGCCATGGATAACTCAGGAATGAACATTAGGCATTCTTCAG GCAATCCAGTGCCTAATCAGTTTCCATCTCAGTCGCATCAGTTGCATAATAACCTGAAACCTCG ATTCATTCCTAGCTCCCAGGCTTCGAGTAATATGGCTTCAGTAAATGAGGTATGCCTGCCAACT TCATGTACATAATGAAGAGTATTGTTATTTTTGTTTGAATACATTTTATTAATGTACTTTTAGT CTGTTTATTCGTCTTATTTATGAAGTAATTTCCTTTTTAGAAAATGCTGATGAGAGAGGAGCAA TTTAAATCTCGACATGTTCCAAATAGCTCCAGTTCACCACCCTTTGGAGGATCTGATGCTGGCC TGCCTCAAAATCGAGCAGTTCAAAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004631* osi_circ_014044 						
					
						PMCS
						0.314989552

Conservation Information
Conserved circRNAs	osi_circ_004631* osi_circ_014044
PMCS	0.314989552

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5912327-5909868(+)
5909987-5909813(+)
						
						Potential amino acid sequence
						
							MFQIAPVHHPLEDLMLACLKIEQFKTGYGKIRGRFQVAFSLNSALLVEGYPSVLAVISVGSSSS
S*(+)
MSQFHPTQHGGDSDFQVWQQQMMYKQLQEFQRQQQVQQLDHGARMQPSFGQFQAPAKPLPTDQL
SAMTNEMPNNESTAYAWSHQLHGSSDPGLASNSQMLNPSSNTNWEQYGGAPGVANFVNGSMFSN
TPIQPMRPMGLAAHQMNPSLYPINTTSRDGSGNQHSQFLGIPTDPRNAMARAAAHQSEKASMQF
SSLMSEQGPSSSMQNFLGKVGDNIKVGTPVPVNHLQHGVQHQDFHGRPNQVDFQAGLREKSTMQ
VESGNGGASLDPTEEKFLFGNDEDSNWGALLRGGNDHGSSMDNDNFGGALPSLQSGSWSALMQE
ALQSTTSDNSPKEEWSGLSFQKQEQIIANNSTLQSHDQNKFSALSGANLENQRPSSASSYGDGT
MHNPNFAGFQHAARTPYEQRDRMQHDSSNATGTNHQSTAGVNNGYFQQSMKQKQSDDYSRQEQM
NASNGIWAHQKPEMPRNNSHSSGGHATPPSAHGFWMSQQNSIDHNISRESGSTQNDWKSKAPLV
QDINSTPNVFNNDGSFWKSSGGNANSVHRPQQMKPDISTMQMPNDSSDGKSTSAMGSNMPTLNQ
DQYQSIIGRTGEHVGQNHNMGRKGPEITGSLGRGAEQKSNDHNQDYLNVLPTERQGHGSNHGQH
VSSDFATRRHPFFAGKESQNLGQSGQQAMGSYMLQNHAMDNSGMNIRHSSGNPVPNQFPSQSHQ
LHNNLKPRFIPSSQASSNMASVNEKMLMREEQFKSRHVPNSSSSPPFGGSDAGLPQNRAVQNRL
RKNKRPVSGCFQLEFCFIG*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5912327-5909868(+) 5909987-5909813(+)
Potential amino acid sequence	MFQIAPVHHPLEDLMLACLKIEQFKTGYGKIRGRFQVAFSLNSALLVEGYPSVLAVISVGSSSS S(+) MSQFHPTQHGGDSDFQVWQQQMMYKQLQEFQRQQQVQQLDHGARMQPSFGQFQAPAKPLPTDQL SAMTNEMPNNESTAYAWSHQLHGSSDPGLASNSQMLNPSSNTNWEQYGGAPGVANFVNGSMFSN TPIQPMRPMGLAAHQMNPSLYPINTTSRDGSGNQHSQFLGIPTDPRNAMARAAAHQSEKASMQF SSLMSEQGPSSSMQNFLGKVGDNIKVGTPVPVNHLQHGVQHQDFHGRPNQVDFQAGLREKSTMQ VESGNGGASLDPTEEKFLFGNDEDSNWGALLRGGNDHGSSMDNDNFGGALPSLQSGSWSALMQE ALQSTTSDNSPKEEWSGLSFQKQEQIIANNSTLQSHDQNKFSALSGANLENQRPSSASSYGDGT MHNPNFAGFQHAARTPYEQRDRMQHDSSNATGTNHQSTAGVNNGYFQQSMKQKQSDDYSRQEQM NASNGIWAHQKPEMPRNNSHSSGGHATPPSAHGFWMSQQNSIDHNISRESGSTQNDWKSKAPLV QDINSTPNVFNNDGSFWKSSGGNANSVHRPQQMKPDISTMQMPNDSSDGKSTSAMGSNMPTLNQ DQYQSIIGRTGEHVGQNHNMGRKGPEITGSLGRGAEQKSNDHNQDYLNVLPTERQGHGSNHGQH VSSDFATRRHPFFAGKESQNLGQSGQQAMGSYMLQNHAMDNSGMNIRHSSGNPVPNQFPSQSHQ LHNNLKPRFIPSSQASSNMASVNEKMLMREEQFKSRHVPNSSSSPPFGGSDAGLPQNRAVQNRL RKNKRPVSGCFQLEFCFIG(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0213300_circ_g.2

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