Plant Circular RNA Database

Detail information of Os05g0579000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0579000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_029081
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 28820011-28822117  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0579050						
					
						Parent gene annotation
						
							Hypothetical protein. (Os05t0579050-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0579000_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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  
						
							CT-AC							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
						Os05t0579000-01:10
Os05t0579000-01:10
Os05t0579050-00:6

General Information
CircRNA Name	Os05g0579000_circ_g.2
ID in PlantcircBase	osa_circ_029081
Alias	NA
Organism	Oryza sativa
Position	chr5: 28820011-28822117 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0579050
Parent gene annotation	Hypothetical protein. (Os05t0579050-00)
Parent gene strand	+
Alternative splicing	Os05g0579000_circ_g.3
Support reads	1
Tissues	shoot
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	CT-AC 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	Os05t0579000-01:10 Os05t0579000-01:10 Os05t0579050-00:6

			
						 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  
						
							CAAAAAAAAAAAAAGCAATATAGGGCAACACTCACCAGCCACCTTGGTGATTCAGGGATAAAGA
ACAATCCAGGTATCAGAATTGAACATGGTAAAATACctccattgctccagcttaacatcaagct
tgctgtcatcgtaatgagccaagccgtcaaccagtttgcaagggttgcaacgcttccagcaagg
ctcttgat

									
								

					

						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: 735
Transcript exons: 28820011-28820125,28820239-28820298,28820377-28820442,28
820596-28820655,28820735-28820797,28820897-28820943,2882
1444-28821528,28821608-28821688,28821880-28821972,288220
53-28822117
CTCCATTGCTCCAGCTTAACATCAAGCTTGCTGTCATCGTAATGAGCCAAGCCGTCAACCAGTT
TGCAAGGGTTGCAACGCTTCCAGCAAGGCTCTTGATATTTACAGGAAGAATCTCAGACATTATG
ATCCATGGTATGGCTCCCAAACCAAGAGAAAATGAAATCACAAATGCCACAAGCCCGACCAGCG
AAAGCATACTCATTACAGAGTATAAATGAGAACCATTAGTTATGTTGTCCTTCACAAAAAATGA
CACAGAAACAACAACAAGAGTAATGGTCATCCCTGTAGTAGAGATAATGAGGAGGAGTCGTCGA
CCAGCTTTGTCAGTCAACCAAGTTGTCACTCCAGTAGCAACCACCTGAACAACCCCCAGACCAA
ATGTTGCTAGATTACTATTCGTAAGACCGGCGGCTTTGAAGATACTAGCAGCATAAAATAGAAT
GCCATTCACACCACTTAACTGCTGCAGTACAAGGAGACCAATTCCTATCATTAGAGGTACACTA
TATCTCTTCTGCTTGATATCTGCAAATCGTATTGTCGTCCTCCTCCGTGATGATTGAACTGTTC
TCTTTATTTCATTTACTTCTACAGCGATGTCTGTTTCAAATCCTCGCAATACTTGCAGCGAGGA
TTCAAAATCCTCCATCTTTCCCATTTTTGCCAGCCACCTTGGTGATTCAGGGATAAAGAACAAT
CCAGGTATCAGAATTGAACATGGTAAAATAC
						
					

						Genomic sequence
						
							CTCCATTGCTCCAGCTTAACATCAAGCTTGCTGTCATCGTAATGAGCCAAGCCGTCAACCAGTT
TGCAAGGGTTGCAACGCTTCCAGCAAGGCTCTTGATATTTACAGGAAGAATCTGAAGGCATGCA
AGGCAAATACATCAATCTCCCAGTCAAATTCAACAATAAATTTGCTCTAGGCCTTCAGTAATAA
TCTCAGCTAATATTAGCAGGAAGGATTATACAATACCTCAGACATTATGATCCATGGTATGGCT
CCCAAACCAAGAGAAAATGAAATCACAAATGCCTGTGATATAACATAGAAGGCAATAAGCGCTT
CTGCCAACAATGAGAAAAGAGAGATGCACATAGAACTTCAACTAACCACAAGCCCGACCAGCGA
AAGCATACTCATTACAGAGTATAAATGAGAACCATTAGTTATGTTGTCCTGTTTCATGATCGAT
AGTAAAATATGTTACAAAGGGAATATAATATCAGGTAACACAATCAAGATTTAATTGAACGAAA
CTAGACAAGCAGCGAAATACAAAACATTAAATATAGTACCAAATAAATTTTTTAAGTGGCAAAA
TGACAATACCTTCACAAAAAATGACACAGAAACAACAACAAGAGTAATGGTCATCCCTGTAGTA
GAGATCTGGAAAAAAAATAAAAATAAATAAATTATATATTCTTCGAAAGTAGCATGCCTGAAAA
TTAATGGGGATGCAACTAACAATGAGGAGGAGTCGTCGACCAGCTTTGTCAGTCAACCAAGTTG
TCACTCCAGTAGCAACCACCTAACATGGTTAGATTTTGTTAAGTATATGAAATAGAATGTCCAC
ATTTGTACAAAGTTGATAAATGAGACATGGATTTAACTCATAGGAAAAGCATACCTGAACAACC
CCCAGACCAAATGTTGCTAGATTACTATTCGTAAGACCTGTATAGGAAGAATTTTGTAAGATAT
CATGCTTAACAAAGTTCTAAGCTACTGCCATTTTTGTGGTATTAAAGTAAAATATTGTGATAGG
AGCATCATGCAAACATAAATCACATAACAAATGGTAGCTTTGCATTTGCCTCAGGAGCTCCAAA
TATCCAAATTAAACTGGTATTATATAAGCGGAAGACTTATGGCTGGTTTTCAATTAATGTCCTG
TTCAGATGCACAGTGCAAGTCTTGCTAACTCCACGAGTATTTTATTATTAAAGCTCAATAAAGA
TTGTTCAACTAGTTATTATATTTTTTTTTCTAAAAAATAGCTTTGGAAAATCCAGAGCAATGAC
AGAGCAGAGCAGAGCCTTGGCAATAATCGATTTTGACATTTGTTTTTATCACACATTCACTTGT
CACAGAGTCCTGAGGTATGTGTCCTAAACTAGCACGTACAAGCATGTCATTTCTTAAAACGAAG
TCTCATTATATCCTCCAGAACATACCGGCGGCTTTGAAGATACTAGCAGCATAAAATAGAATGC
CATTCACACCACTTAACTGCTGCAGTACAAGGAGACCAATTCCTATCTGAAGAGATAAAAACAG
TAAGCAAAAAAAGGAACAATAAGGTATCAGAGAAAAAAATATATAATTGGAAGCAACAAACCAT
TAGAGGTACACTATATCTCTTCTGCTTGATATCTGCAAATCGTATTGTCGTCCTCCTCCGTGAT
GATTGAACTGTTCTCTATGTAGAAAATGTGTAAAAATTTATAAATCACATTTCCTTATGTTACA
TTGCCACACAGAAATAGGATAAATTCCCCACAGTCCGTATTGGTTGAGGTAATTGACAGGTGCA
ACATAAAGAATAAAAATGTCCGCACCAGGTGCATATCACTTAACTACAATAAAATGAAGCCTGG
TACAGATGGTTACCTTTATTTCATTTACTTCTACAGCGATGTCTGTTTCAAATCCTCGCAATAC
TTGCAGCGAGGATTCAAAATCCTCCATCTTTCCCATTTTTGCCTAACATTATAATCTGTTCTAT
TTAGATCCTGCTGTAACTGTTAACAAAAAAAAAAAAAGCAATATAGGGCAACACTCACCAGCCA
CCTTGGTGATTCAGGGATAAAGAACAATCCAGGTATCAGAATTGAACATGGTAAAATAC
						
					

			
		

Sequences
Splice junction sequence	CAAAAAAAAAAAAAGCAATATAGGGCAACACTCACCAGCCACCTTGGTGATTCAGGGATAAAGA ACAATCCAGGTATCAGAATTGAACATGGTAAAATACctccattgctccagcttaacatcaagct tgctgtcatcgtaatgagccaagccgtcaaccagtttgcaagggttgcaacgcttccagcaagg ctcttgat
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: 735 Transcript exons: 28820011-28820125,28820239-28820298,28820377-28820442,28 820596-28820655,28820735-28820797,28820897-28820943,2882 1444-28821528,28821608-28821688,28821880-28821972,288220 53-28822117 CTCCATTGCTCCAGCTTAACATCAAGCTTGCTGTCATCGTAATGAGCCAAGCCGTCAACCAGTT TGCAAGGGTTGCAACGCTTCCAGCAAGGCTCTTGATATTTACAGGAAGAATCTCAGACATTATG ATCCATGGTATGGCTCCCAAACCAAGAGAAAATGAAATCACAAATGCCACAAGCCCGACCAGCG AAAGCATACTCATTACAGAGTATAAATGAGAACCATTAGTTATGTTGTCCTTCACAAAAAATGA CACAGAAACAACAACAAGAGTAATGGTCATCCCTGTAGTAGAGATAATGAGGAGGAGTCGTCGA CCAGCTTTGTCAGTCAACCAAGTTGTCACTCCAGTAGCAACCACCTGAACAACCCCCAGACCAA ATGTTGCTAGATTACTATTCGTAAGACCGGCGGCTTTGAAGATACTAGCAGCATAAAATAGAAT GCCATTCACACCACTTAACTGCTGCAGTACAAGGAGACCAATTCCTATCATTAGAGGTACACTA TATCTCTTCTGCTTGATATCTGCAAATCGTATTGTCGTCCTCCTCCGTGATGATTGAACTGTTC TCTTTATTTCATTTACTTCTACAGCGATGTCTGTTTCAAATCCTCGCAATACTTGCAGCGAGGA TTCAAAATCCTCCATCTTTCCCATTTTTGCCAGCCACCTTGGTGATTCAGGGATAAAGAACAAT CCAGGTATCAGAATTGAACATGGTAAAATAC
Genomic sequence	CTCCATTGCTCCAGCTTAACATCAAGCTTGCTGTCATCGTAATGAGCCAAGCCGTCAACCAGTT TGCAAGGGTTGCAACGCTTCCAGCAAGGCTCTTGATATTTACAGGAAGAATCTGAAGGCATGCA AGGCAAATACATCAATCTCCCAGTCAAATTCAACAATAAATTTGCTCTAGGCCTTCAGTAATAA TCTCAGCTAATATTAGCAGGAAGGATTATACAATACCTCAGACATTATGATCCATGGTATGGCT CCCAAACCAAGAGAAAATGAAATCACAAATGCCTGTGATATAACATAGAAGGCAATAAGCGCTT CTGCCAACAATGAGAAAAGAGAGATGCACATAGAACTTCAACTAACCACAAGCCCGACCAGCGA AAGCATACTCATTACAGAGTATAAATGAGAACCATTAGTTATGTTGTCCTGTTTCATGATCGAT AGTAAAATATGTTACAAAGGGAATATAATATCAGGTAACACAATCAAGATTTAATTGAACGAAA CTAGACAAGCAGCGAAATACAAAACATTAAATATAGTACCAAATAAATTTTTTAAGTGGCAAAA TGACAATACCTTCACAAAAAATGACACAGAAACAACAACAAGAGTAATGGTCATCCCTGTAGTA GAGATCTGGAAAAAAAATAAAAATAAATAAATTATATATTCTTCGAAAGTAGCATGCCTGAAAA TTAATGGGGATGCAACTAACAATGAGGAGGAGTCGTCGACCAGCTTTGTCAGTCAACCAAGTTG TCACTCCAGTAGCAACCACCTAACATGGTTAGATTTTGTTAAGTATATGAAATAGAATGTCCAC ATTTGTACAAAGTTGATAAATGAGACATGGATTTAACTCATAGGAAAAGCATACCTGAACAACC CCCAGACCAAATGTTGCTAGATTACTATTCGTAAGACCTGTATAGGAAGAATTTTGTAAGATAT CATGCTTAACAAAGTTCTAAGCTACTGCCATTTTTGTGGTATTAAAGTAAAATATTGTGATAGG AGCATCATGCAAACATAAATCACATAACAAATGGTAGCTTTGCATTTGCCTCAGGAGCTCCAAA TATCCAAATTAAACTGGTATTATATAAGCGGAAGACTTATGGCTGGTTTTCAATTAATGTCCTG TTCAGATGCACAGTGCAAGTCTTGCTAACTCCACGAGTATTTTATTATTAAAGCTCAATAAAGA TTGTTCAACTAGTTATTATATTTTTTTTTCTAAAAAATAGCTTTGGAAAATCCAGAGCAATGAC AGAGCAGAGCAGAGCCTTGGCAATAATCGATTTTGACATTTGTTTTTATCACACATTCACTTGT CACAGAGTCCTGAGGTATGTGTCCTAAACTAGCACGTACAAGCATGTCATTTCTTAAAACGAAG TCTCATTATATCCTCCAGAACATACCGGCGGCTTTGAAGATACTAGCAGCATAAAATAGAATGC CATTCACACCACTTAACTGCTGCAGTACAAGGAGACCAATTCCTATCTGAAGAGATAAAAACAG TAAGCAAAAAAAGGAACAATAAGGTATCAGAGAAAAAAATATATAATTGGAAGCAACAAACCAT TAGAGGTACACTATATCTCTTCTGCTTGATATCTGCAAATCGTATTGTCGTCCTCCTCCGTGAT GATTGAACTGTTCTCTATGTAGAAAATGTGTAAAAATTTATAAATCACATTTCCTTATGTTACA TTGCCACACAGAAATAGGATAAATTCCCCACAGTCCGTATTGGTTGAGGTAATTGACAGGTGCA ACATAAAGAATAAAAATGTCCGCACCAGGTGCATATCACTTAACTACAATAAAATGAAGCCTGG TACAGATGGTTACCTTTATTTCATTTACTTCTACAGCGATGTCTGTTTCAAATCCTCGCAATAC TTGCAGCGAGGATTCAAAATCCTCCATCTTTCCCATTTTTGCCTAACATTATAATCTGTTCTAT TTAGATCCTGCTGTAACTGTTAACAAAAAAAAAAAAAGCAATATAGGGCAACACTCACCAGCCA CCTTGGTGATTCAGGGATAAAGAACAATCCAGGTATCAGAATTGAACATGGTAAAATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.228735259

Conservation Information
Conserved circRNAs	NA
PMCS	0.228735259

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28821906-28820419(+)
28821968-28820013(-)
						
						Potential amino acid sequence
						
							MSVSNPRNTCSEDSKSSIFPIFASHLGDSGIKNNPGIRIEHGKIPPLLQLNIKLAVIVMSQAVN
QFARVATLPARLLIFTGRISDIMIHGMAPKPRENEITNATSPTSESILITEYK*(+)
MGKMEDFESSLQVLRGFETDIAVEVNEIKRTVQSSRRRTTIRFADIKQKRYSVPLMIGIGLLVL
QQLSGVNGILFYAASIFKAAGLTNSNLATFGLGVVQVVATGVTTWLTDKAGRRLLLIISTTGMT
ITLVVVSVSFFVKDNITNGSHLYSVMSMLSLVGLVAFVISFSLGLGAIPWIIMSEILPVNIKSL
AGSVATLANWLTAWLITMTASLMLSWSNGGILPCSILIPGLFFIPESPRWLAKMGKMEDFESSL
QVLRGFETDIAVEVNEIKRTVQSSRRRTTIRFADIKQKRYSVPLMIGIGLLVLQQLSGVNGILF
YAASIFKAAGLTNSNLATFGLGVVQVVATGVTTWLTDKAGRRLLLIISTTGMTITLVVVSVSFF
VKDNITNGSHLYSVMSMLSLVGLVAFVISFSLGLGAIPWIIMSEILPVNIKSLAGSVATLANWL
TAWLITMTASLMLSWSNGGILPCSILIPGLFFIPESPRWLAKMGKMEDFESSLQVLRGFETDIA
VEVNEIKRTVQSSRRRTTIRFADIKQKRYSVPLMIGIGLLVLQQLSGVNGILFYAASIFKAAGL
TNSNLATFGLGVVQVVATGVTTWLTDKAGRRLLLIISTTGMTITLVVVSVSFFVKDNITNGSHL
YSVMSMLSLVGLVAFVISFSLGLGAIPWIIMSEILPVNIKSLAGSVATLANWLTAWLITMTASL
MLSWSNGGILPCSILIPGLFFIPESPRWLAKMGKMEDFESSLQVLRGFETDIAVEVNEIKRTVQ
SSRRRTTIRFADIKQKRYSVPLMIGIGLLVLQQLSGVNGILFYAASIFKAAGLTNSNLATFGLG
VVQVVATGVTTWLTDKAGRRLLLIISTTGMTITLVVVSVSFFVKDNITNGSHLYSVMSMLSLVG
LVAFVISFSLGLGAIPWIIMSEILPVNIKSLAGSVATLANWLTAWLITMTASLMLSWSNG(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28821906-28820419(+) 28821968-28820013(-)
Potential amino acid sequence	MSVSNPRNTCSEDSKSSIFPIFASHLGDSGIKNNPGIRIEHGKIPPLLQLNIKLAVIVMSQAVN QFARVATLPARLLIFTGRISDIMIHGMAPKPRENEITNATSPTSESILITEYK*(+) MGKMEDFESSLQVLRGFETDIAVEVNEIKRTVQSSRRRTTIRFADIKQKRYSVPLMIGIGLLVL QQLSGVNGILFYAASIFKAAGLTNSNLATFGLGVVQVVATGVTTWLTDKAGRRLLLIISTTGMT ITLVVVSVSFFVKDNITNGSHLYSVMSMLSLVGLVAFVISFSLGLGAIPWIIMSEILPVNIKSL AGSVATLANWLTAWLITMTASLMLSWSNGGILPCSILIPGLFFIPESPRWLAKMGKMEDFESSL QVLRGFETDIAVEVNEIKRTVQSSRRRTTIRFADIKQKRYSVPLMIGIGLLVLQQLSGVNGILF YAASIFKAAGLTNSNLATFGLGVVQVVATGVTTWLTDKAGRRLLLIISTTGMTITLVVVSVSFF VKDNITNGSHLYSVMSMLSLVGLVAFVISFSLGLGAIPWIIMSEILPVNIKSLAGSVATLANWL TAWLITMTASLMLSWSNGGILPCSILIPGLFFIPESPRWLAKMGKMEDFESSLQVLRGFETDIA VEVNEIKRTVQSSRRRTTIRFADIKQKRYSVPLMIGIGLLVLQQLSGVNGILFYAASIFKAAGL TNSNLATFGLGVVQVVATGVTTWLTDKAGRRLLLIISTTGMTITLVVVSVSFFVKDNITNGSHL YSVMSMLSLVGLVAFVISFSLGLGAIPWIIMSEILPVNIKSLAGSVATLANWLTAWLITMTASL MLSWSNGGILPCSILIPGLFFIPESPRWLAKMGKMEDFESSLQVLRGFETDIAVEVNEIKRTVQ SSRRRTTIRFADIKQKRYSVPLMIGIGLLVLQQLSGVNGILFYAASIFKAAGLTNSNLATFGLG VVQVVATGVTTWLTDKAGRRLLLIISTTGMTITLVVVSVSFFVKDNITNGSHLYSVMSMLSLVG LVAFVISFSLGLGAIPWIIMSEILPVNIKSLAGSVATLANWLTAWLITMTASLMLSWSNG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0579000_circ_g.2

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