Plant Circular RNA Database

Detail information of Os03g0333100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0333100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_019650
					
						Alias
						Os_ciR8481
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 12299552-12302189  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0333100						
					
						Parent gene annotation
						
							Protein of unknown function DUF663 domain containing protein. (O
s03t0333100-01);Hypothetical conserved gene. (Os03t0333100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0333100_circ_g.4 Os03g0333100_circ_g.5 						
					
						Support reads
						2
					
						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
						Os03t0333100-02:4
Os03t0333100-01:4

General Information
CircRNA Name	Os03g0333100_circ_g.3
ID in PlantcircBase	osa_circ_019650
Alias	Os_ciR8481
Organism	Oryza sativa
Position	chr3: 12299552-12302189 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os03g0333100
Parent gene annotation	Protein of unknown function DUF663 domain containing protein. (O s03t0333100-01);Hypothetical conserved gene. (Os03t0333100-02)
Parent gene strand	+
Alternative splicing	Os03g0333100_circ_g.4 Os03g0333100_circ_g.5
Support reads	2
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	Os03t0333100-02:4 Os03t0333100-01:4

			
						 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  
						
							TTGTAGGGTGCGGAAGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAG
GTTCCGCAGATGACAGTGAAGAATCACTTGATTCAGgtacacgaaaagagaagtccataatctt
gcaaggttcatctctgttatcaagcctatcccactgagttggaggatggcacatccttatctgc
tagtcgat

									
								

					

						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: 929
Transcript exons: 12299552-12299762,12300184-12300421,12301056-12301441,12
302096-12302189
GTACACGAAAAGAGAAGTCCATAATCTTGCAAGGTTCATCTCTGTTATCAAGCCTATCCCACTG
AGTTGGAGGATGGCACATCCTTATCTGCTAGTCGATAGATTTGAAGATGTAACTCCTCCAGAAA
GTGTGCGCTTGAACAGAAAGTGTGACAGGAAAATAACATTGTATGGCTACCTTCGTGGCTGTAA
CATGAAAAGAGGGACAAAGGTACATATCACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACA
AGTTTGGCAGATCCTTGCCCATTGCCATCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAA
AGCTGTTCTACGCGCCAATGTCTGGCCTTGGTGATCTACTGTATGACACAGATGCAGTTTATAT
AAACATCAATCCTCATCTTGTTCAGTTCTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAA
GGGAAAGGACAGGATGTTGGTGTAACCCTAGTAAAAACACTTCAGAACCCCAGATATTCCCTTA
ATGAAAAGTTGGATCAGAGTTTTATAAATTTATTTGGTAGAAAGCCTGCTGCTCAGTCCGAAGA
CATCTCTGGCAACCAGAATGATCAGGGAGATGCTAATATTTTGGAAGAAGCAGATGGTAATAAC
ATATGCAACGCAAACACATTGGAGAGCAATGATCATTCTTATTCTGAGTGCTCCAGCGATAGTG
AACATGATAATGATGAAGCAACTCAGCAAAATGACCATGAAGTTGGCTTGAGAGAAGAGGTGGA
ATTTTGCAATGGAAGGATGAGGAGAAAAGCTGTATCAGCTAATTTTAAAGATGATGACGATGAT
GAGGGTGCGGAAGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTT
CCGCAGATGACAGTGAAGAATCACTTGATTCAG
						
					

						Genomic sequence
						
							GTACACGAAAAGAGAAGTCCATAATCTTGCAAGGTTCATCTCTGTTATCAAGCCTATCCCACTG
AGTTGGAGGATGGCACATCCTTATCTGCTAGTCGATAGATTTGAAGATGTAACTCCTCCAGAAA
GTGTGCGCTTGAACAGAAAGTGTGACAGGAAAATAACATTGTATGGCTACCTTCGTGGCTGTAA
CATGAAAAGAGGGACAAAGGTGTTCTTCATCATCTCTGGAACTTAATGTTAAACTAACCCAGAT
TCTACTTTGTAGCAGATAGATGTTATTTAACTTGTTACTTTACTTAATGTTAGTACATGATTTT
GGGTCCCTAGTTGATCTTATTTGAACAGCCTTAGTAAATATGACAAAATTGAGGGTGAAGATAA
TGACATCTTATTTTACAGGAAGCATGAATTTACTGCCAATGAACCTGATGAATCTTCAAAAATT
TTTTAATTTTGAAAAATTAGCTAACAGAATGTGTGGCACTATCTACATTAATTATGCTTCAGTC
TGGTTGGCAAAACTGAAGCTAATTACTTTTCCTTTCTGTGAGGAGAAATTCTAAGTTCTTTCAT
GTCTGACTATAGTGCCCTAAACTTTTGGATAGTAAAACACACAATTATCTGTGCAGGTACATAT
CACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACAAGTTTGGCAGATCCTTGCCCATTGCCA
TCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAAAGCTGTTCTACGCGCCAATGTCTGGCC
TTGGTGATCTACTGTATGACACAGATGCAGTTTATATAAACATCAATCCTCATCTTGTTCAGTT
CTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAAGGTATGTTTAAAGTATAAACCATTCAT
AATGATACTAGGCACCTCATTCCTTCATCCTCTTTGCATTTGAAGTTTCTTGAAGTATGTTGTT
TAGGACGATAAGGTCCTGAGGACTGTGCAATGCACAAACATACTTTAATAGACAAGACCCATCA
AGTTGAAAACTCACTTTACTTATGTTTTCTTGTCTATTTATTTCTTTGGTAGAGTGGTGTGCAA
CCTGAAAGAATGTTTTGGCGTTGAAAGTTTTTCAGTGTTTTCTGAGCTTGGATTGCAAAGCAAG
GCACACACTGTTACTGTTACACCTGTTCCTTGTGCCTGGAAGAGATTTTAGCAAATAAAAGAAA
ATCTAAGAGTTAGATCTTTAACAGATTATTTGTCTATTTACCTTTATAGTATCTGTCCGGTTTC
ATATATTCACATTTATCATGCAATTTTAGCTTGCCATCAAAACACAAGTAGGAATATGTATCAG
ATCTATCATAGAAGAACTTCCTACAATAGATGCACGCTTGTGCTTGAATGGAAGTAATTTTAGT
TTTGTTGGCTAGAATCCTGCTCTAGCTTTTTTTTTGTCTTCTTTATGTATGGCCATCCTTTGTT
GTTTGCTAGATTACTGACTTATCATCATACAGGGAAAGGACAGGATGTTGGTGTAACCCTAGTA
AAAACACTTCAGAACCCCAGATATTCCCTTAATGAAAAGTTGGATCAGAGTTTTATAAATTTAT
TTGGTAGAAAGCCTGCTGCTCAGTCCGAAGACATCTCTGGCAACCAGAATGATCAGGGAGATGC
TAATATTTTGGAAGAAGCAGATGGTAATAACATATGCAACGCAAACACATTGGAGAGCAATGAT
CATTCTTATTCTGAGTGCTCCAGCGATAGTGAACATGATAATGATGAAGCAACTCAGCAAAATG
ACCATGAAGTTGGCTTGAGAGAAGAGGTGGAATTTTGCAATGGAAGGATGAGGAGAAAAGCTGT
ATCAGCTAATTTTAAAGATGATGACGATGATGAGGTTTTTACCATTTTCCTTTGTTCTTATTAA
TTAATAGTTCTCTTGCTCTCACATTCTTTTTTTTTTCTTGCTCTCTTACTCTTAAGTTCCCTGT
TTAGTTTTGTTTTGCCCGATGTAATCCATCCAGGAAACACATGGCTTTGCATCACTACTCCAGA
CCAAGAAATTTGACATAAAACACTATGCAGCTGAATAACATTATGTTAGCACAGCTATTGGCCA
TTCCTAAGTCACCAGTTGTAGTTCATGTCTCAACATCATTTGAAGTGTAGAACAATGATATTTT
TTGAATACTTATCATACATAAATATTAATGTTAAATATTTACGTTAATATTTAACACTAAATAT
TTACTTACAATATCTAGTTTGTTTTAGCACCGTATTAACATAAATATTTGCAATGTGTACTTTG
ATTTCTAGTACAACTCACTAATATTACTTACAGATACATATTTGGAATAGTTAGAAGAACACGT
TTTATTGTAACCCTTGACTTCTAGCACAGCTTCTATTCGCCTGGTATACTTCCAAATTACCTCA
TTGCGATGAACCATGAACCATGATGTGGTACTTTGCTTTTAATTCTTTTACATGTCTACAGATT
TTCAATTTCAAGCTTTTAAAGGTATTTCAACCTTGGTCTACCTTGTAGGGTGCGGAAGAAGATG
ACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTTCCGCAGATGACAGTGAAGA
ATCACTTGATTCAG
						
					

			
		

Sequences
Splice junction sequence	TTGTAGGGTGCGGAAGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAG GTTCCGCAGATGACAGTGAAGAATCACTTGATTCAGgtacacgaaaagagaagtccataatctt gcaaggttcatctctgttatcaagcctatcccactgagttggaggatggcacatccttatctgc tagtcgat
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: 929 Transcript exons: 12299552-12299762,12300184-12300421,12301056-12301441,12 302096-12302189 GTACACGAAAAGAGAAGTCCATAATCTTGCAAGGTTCATCTCTGTTATCAAGCCTATCCCACTG AGTTGGAGGATGGCACATCCTTATCTGCTAGTCGATAGATTTGAAGATGTAACTCCTCCAGAAA GTGTGCGCTTGAACAGAAAGTGTGACAGGAAAATAACATTGTATGGCTACCTTCGTGGCTGTAA CATGAAAAGAGGGACAAAGGTACATATCACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACA AGTTTGGCAGATCCTTGCCCATTGCCATCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAA AGCTGTTCTACGCGCCAATGTCTGGCCTTGGTGATCTACTGTATGACACAGATGCAGTTTATAT AAACATCAATCCTCATCTTGTTCAGTTCTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAA GGGAAAGGACAGGATGTTGGTGTAACCCTAGTAAAAACACTTCAGAACCCCAGATATTCCCTTA ATGAAAAGTTGGATCAGAGTTTTATAAATTTATTTGGTAGAAAGCCTGCTGCTCAGTCCGAAGA CATCTCTGGCAACCAGAATGATCAGGGAGATGCTAATATTTTGGAAGAAGCAGATGGTAATAAC ATATGCAACGCAAACACATTGGAGAGCAATGATCATTCTTATTCTGAGTGCTCCAGCGATAGTG AACATGATAATGATGAAGCAACTCAGCAAAATGACCATGAAGTTGGCTTGAGAGAAGAGGTGGA ATTTTGCAATGGAAGGATGAGGAGAAAAGCTGTATCAGCTAATTTTAAAGATGATGACGATGAT GAGGGTGCGGAAGAAGATGACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTT CCGCAGATGACAGTGAAGAATCACTTGATTCAG
Genomic sequence	GTACACGAAAAGAGAAGTCCATAATCTTGCAAGGTTCATCTCTGTTATCAAGCCTATCCCACTG AGTTGGAGGATGGCACATCCTTATCTGCTAGTCGATAGATTTGAAGATGTAACTCCTCCAGAAA GTGTGCGCTTGAACAGAAAGTGTGACAGGAAAATAACATTGTATGGCTACCTTCGTGGCTGTAA CATGAAAAGAGGGACAAAGGTGTTCTTCATCATCTCTGGAACTTAATGTTAAACTAACCCAGAT TCTACTTTGTAGCAGATAGATGTTATTTAACTTGTTACTTTACTTAATGTTAGTACATGATTTT GGGTCCCTAGTTGATCTTATTTGAACAGCCTTAGTAAATATGACAAAATTGAGGGTGAAGATAA TGACATCTTATTTTACAGGAAGCATGAATTTACTGCCAATGAACCTGATGAATCTTCAAAAATT TTTTAATTTTGAAAAATTAGCTAACAGAATGTGTGGCACTATCTACATTAATTATGCTTCAGTC TGGTTGGCAAAACTGAAGCTAATTACTTTTCCTTTCTGTGAGGAGAAATTCTAAGTTCTTTCAT GTCTGACTATAGTGCCCTAAACTTTTGGATAGTAAAACACACAATTATCTGTGCAGGTACATAT CACAGGGGCAGGTGATTTTAGCTTGTCTGGGGTAACAAGTTTGGCAGATCCTTGCCCATTGCCA TCAGCTGCAAAGAAGAGAGGACTACGTGACAAGGAAAAGCTGTTCTACGCGCCAATGTCTGGCC TTGGTGATCTACTGTATGACACAGATGCAGTTTATATAAACATCAATCCTCATCTTGTTCAGTT CTCAAAGACTGGTGAGAATGATGCATCTAAAAAGCAAGGTATGTTTAAAGTATAAACCATTCAT AATGATACTAGGCACCTCATTCCTTCATCCTCTTTGCATTTGAAGTTTCTTGAAGTATGTTGTT TAGGACGATAAGGTCCTGAGGACTGTGCAATGCACAAACATACTTTAATAGACAAGACCCATCA AGTTGAAAACTCACTTTACTTATGTTTTCTTGTCTATTTATTTCTTTGGTAGAGTGGTGTGCAA CCTGAAAGAATGTTTTGGCGTTGAAAGTTTTTCAGTGTTTTCTGAGCTTGGATTGCAAAGCAAG GCACACACTGTTACTGTTACACCTGTTCCTTGTGCCTGGAAGAGATTTTAGCAAATAAAAGAAA ATCTAAGAGTTAGATCTTTAACAGATTATTTGTCTATTTACCTTTATAGTATCTGTCCGGTTTC ATATATTCACATTTATCATGCAATTTTAGCTTGCCATCAAAACACAAGTAGGAATATGTATCAG ATCTATCATAGAAGAACTTCCTACAATAGATGCACGCTTGTGCTTGAATGGAAGTAATTTTAGT TTTGTTGGCTAGAATCCTGCTCTAGCTTTTTTTTTGTCTTCTTTATGTATGGCCATCCTTTGTT GTTTGCTAGATTACTGACTTATCATCATACAGGGAAAGGACAGGATGTTGGTGTAACCCTAGTA AAAACACTTCAGAACCCCAGATATTCCCTTAATGAAAAGTTGGATCAGAGTTTTATAAATTTAT TTGGTAGAAAGCCTGCTGCTCAGTCCGAAGACATCTCTGGCAACCAGAATGATCAGGGAGATGC TAATATTTTGGAAGAAGCAGATGGTAATAACATATGCAACGCAAACACATTGGAGAGCAATGAT CATTCTTATTCTGAGTGCTCCAGCGATAGTGAACATGATAATGATGAAGCAACTCAGCAAAATG ACCATGAAGTTGGCTTGAGAGAAGAGGTGGAATTTTGCAATGGAAGGATGAGGAGAAAAGCTGT ATCAGCTAATTTTAAAGATGATGACGATGATGAGGTTTTTACCATTTTCCTTTGTTCTTATTAA TTAATAGTTCTCTTGCTCTCACATTCTTTTTTTTTTCTTGCTCTCTTACTCTTAAGTTCCCTGT TTAGTTTTGTTTTGCCCGATGTAATCCATCCAGGAAACACATGGCTTTGCATCACTACTCCAGA CCAAGAAATTTGACATAAAACACTATGCAGCTGAATAACATTATGTTAGCACAGCTATTGGCCA TTCCTAAGTCACCAGTTGTAGTTCATGTCTCAACATCATTTGAAGTGTAGAACAATGATATTTT TTGAATACTTATCATACATAAATATTAATGTTAAATATTTACGTTAATATTTAACACTAAATAT TTACTTACAATATCTAGTTTGTTTTAGCACCGTATTAACATAAATATTTGCAATGTGTACTTTG ATTTCTAGTACAACTCACTAATATTACTTACAGATACATATTTGGAATAGTTAGAAGAACACGT TTTATTGTAACCCTTGACTTCTAGCACAGCTTCTATTCGCCTGGTATACTTCCAAATTACCTCA TTGCGATGAACCATGAACCATGATGTGGTACTTTGCTTTTAATTCTTTTACATGTCTACAGATT TTCAATTTCAAGCTTTTAAAGGTATTTCAACCTTGGTCTACCTTGTAGGGTGCGGAAGAAGATG ACGTTGACAGTGAAAATTCTGGTGATGACCAGTTATCTGAAGGTTCCGCAGATGACAGTGAAGA ATCACTTGATTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.22004456

Conservation Information
Conserved circRNAs	NA
PMCS	0.22004456

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12299626-12299613(+)
12301426-12299572(+)
12299635-12301335(-)
12299592-12301421(-)
						
						Potential amino acid sequence
						
							MAHPYLLVDRFEDVTPPESVRLNRKCDRKITLYGYLRGCNMKRGTKVHITGAGDFSLSGVTSLA
DPCPLPSAAKKRGLRDKEKLFYAPMSGLGDLLYDTDAVYININPHLVQFSKTGENDASKKQGKG
QDVGVTLVKTLQNPRYSLNEKLDQSFINLFGRKPAAQSEDISGNQNDQGDANILEEADGNNICN
ANTLESNDHSYSECSSDSEHDNDEATQQNDHEVGLREEVEFCNGRMRRKAVSANFKDDDDDEGA
EEDDVDSENSGDDQLSEGSADDSEESLDSGTRKEKSIILQGSSLLSSLSH*(+)
MMTMMRVRKKMTLTVKILVMTSYLKVPQMTVKNHLIQVHEKRSP*(+)
MCHPPTQWDRLDNRDEPCKIMDFSFRVPESSDSSLSSAEPSDNWSSPEFSLSTSSSSAPSSSSS
SLKLADTAFLLILPLQNSTSSLKPTSWSFC*(-)
MNLARLWTSLFVYLNQVILHCHLRNLQITGHHQNFHCQRHLLPHPHHRHHL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12299626-12299613(+) 12301426-12299572(+) 12299635-12301335(-) 12299592-12301421(-)
Potential amino acid sequence	MAHPYLLVDRFEDVTPPESVRLNRKCDRKITLYGYLRGCNMKRGTKVHITGAGDFSLSGVTSLA DPCPLPSAAKKRGLRDKEKLFYAPMSGLGDLLYDTDAVYININPHLVQFSKTGENDASKKQGKG QDVGVTLVKTLQNPRYSLNEKLDQSFINLFGRKPAAQSEDISGNQNDQGDANILEEADGNNICN ANTLESNDHSYSECSSDSEHDNDEATQQNDHEVGLREEVEFCNGRMRRKAVSANFKDDDDDEGA EEDDVDSENSGDDQLSEGSADDSEESLDSGTRKEKSIILQGSSLLSSLSH(+) MMTMMRVRKKMTLTVKILVMTSYLKVPQMTVKNHLIQVHEKRSP(+) MCHPPTQWDRLDNRDEPCKIMDFSFRVPESSDSSLSSAEPSDNWSSPEFSLSTSSSSAPSSSSS SLKLADTAFLLILPLQNSTSSLKPTSWSFC(-) MNLARLWTSLFVYLNQVILHCHLRNLQITGHHQNFHCQRHLLPHPHHRHHL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0333100_circ_g.3

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