Plant Circular RNA Database

Detail information of Os03g0157400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0157400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_018013
					
						Alias
						Os03circ03633
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 3081240-3082872  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os03g0157400						
					
						Parent gene annotation
						
							ABC transporter-like domain containing protein. (Os03t0157400-01
);Similar to white-brown-complex ABC transporter family. (Os03t0
157400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0157400_circ_g.2 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						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
						Os03t0157400-01:5
Os03t0157400-02:5

General Information
CircRNA Name	Os03g0157400_circ_g.1
ID in PlantcircBase	osa_circ_018013
Alias	Os03circ03633
Organism	Oryza sativa
Position	chr3: 3081240-3082872 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os03g0157400
Parent gene annotation	ABC transporter-like domain containing protein. (Os03t0157400-01 );Similar to white-brown-complex ABC transporter family. (Os03t0 157400-02)
Parent gene strand	-
Alternative splicing	Os03g0157400_circ_g.2
Support reads	2
Tissues	leaf
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	Os03t0157400-01:5 Os03t0157400-02:5

			
						 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  
						
							CGTCATTGTTCTTGGGAGACGAAGCAGTGCTGCATAAGTCAATGTCTCCTTTACAGTAAGATGA
GTAAAAAGAACATCATCTTGAGTCACAAATCCAATCctgagcagcaatgatgctgaggaagacg
gtcaacatgctaagaaagaaatgtgcggcagttgctttgaggcctgccatgaagtagacaatca
ccataaat

									
								

					

						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: 1231
Transcript exons: 3081240-3081524,3081685-3081972,3082057-3082374,3082445-
3082628,3082717-3082872
CTGAGCAGCAATGATGCTGAGGAAGACGGTCAACATGCTAAGAAAGAAATGTGCGGCAGTTGCT
TTGAGGCCTGCCATGAAGTAGACAATCACCATAAATATGACTGGAAGGAAAAGGTCCAGTGGCA
GATCACTTGTCGTTCTGGCCAAGAAGTATGCACTGAGCTTGTACATGTCAGCTGCACGCTCCTT
GTTCAACATTGCCCTTTCTTGTGGGAATGTGAAGATGGCAGTAAACACAGGAAAGAAACCCCAA
AACACAGCTATGAAAAACAGTAAGCCGGCCTGATCTTGTAGACCTTTTGGTGTCGAGGGATCAG
AGTGCCACCATAGTAGACCTAAGATAACTGATGTTGCTATGACCTGGGTGATTCTCATCCAGCT
CAAATAATCATGTCGCCGTTCTTTGATCCCTCTACAGAAGAGGATGGAATATTGCTGCCACCAG
CTAGTGCCCCATTCTCGCTTTGATGATGTTATAGTTGTCTTCATATCGTCACTGATTGGAAGTG
GATCTAGAAGCTGCTTCTTCGCCTTGTATGCCACTCGATTCTCATAGGCGTCTACAAGATACTC
ATGAACATCTTGTGCTGATGGCTTGTAGTCATTCTTGGTATTAGTTTGCAGGTTTTGATTTTCC
ATGTGCACCTTGTCATCTAACTCGGAAGGAACAGAAACATCAGTAGTGTTTCCGTTGGCGAGAT
CCAGTAGAAATTCTGCTGGGTTCATTGCGATGAGCGGGGTGCACCCAATGGACTGAAAGTAGGG
CATGGCTTCAGATGCCTTCCCAAAATAGAGCAAACTTCCTCTTCCCAGGAGGATAAGCTTGTCA
AACTTATGAAATAATCTGCTAGATGGTTGATGGATTGTTGTTATTACTGTCTTCCCATCCTCAG
CTATATCATGTAGAAGTTGAATTATCCTGAGAGCTGTAGTTGAATCCAATCCAGATGTTGGTTC
ATCGAGAAAGAGTAAAGATGGATTTATTATGATCTCATTTCCAATGCAAACTCTTTTCCTTTCA
CCCCCTGAAACCCCACGGACGAAAGATCCACCAATCATCGTGTCCTGGCACCTTTCAAGGCCAA
GTTCATATATGATGTCTATTGTTCGTTCTTCCTTTTCTTGCCTCGTCATTGTTCTTGGGAGACG
AAGCAGTGCTGCATAAGTCAATGTCTCCTTTACAGTAAGATGAGTAAAAAGAACATCATCTTGA
GTCACAAATCCAATC
						
					

						Genomic sequence
						
							CTGAGCAGCAATGATGCTGAGGAAGACGGTCAACATGCTAAGAAAGAAATGTGCGGCAGTTGCT
TTGAGGCCTGCCATGAAGTAGACAATCACCATAAATATGACTGGAAGGAAAAGGTCCAGTGGCA
GATCACTTGTCGTTCTGGCCAAGAAGTATGCACTGAGCTTGTACATGTCAGCTGCACGCTCCTT
GTTCAACATTGCCCTTTCTTGTGGGAATGTGAAGATGGCAGTAAACACAGGAAAGAAACCCCAA
AACACAGCTATGAAAAACAGTAAGCCGGCCTGCATACGCAAGATAAAATTGTGTTATGATACTA
ATCTTCCTGCATACCCGAGCTGACATATCATTAATAAGCTCTCTGAGTAACCAACTCCGCCATT
TCACATGAATCACATTTTCTTTGGCGTAAAATGAATCGCATGATTATTGCTATCTATGTACCTG
ATCTTGTAGACCTTTTGGTGTCGAGGGATCAGAGTGCCACCATAGTAGACCTAAGATAACTGAT
GTTGCTATGACCTGGGTGATTCTCATCCAGCTCAAATAATCATGTCGCCGTTCTTTGATCCCTC
TACAGAAGAGGATGGAATATTGCTGCCACCAGCTAGTGCCCCATTCTCGCTTTGATGATGTTAT
AGTTGTCTTCATATCGTCACTGATTGGAAGTGGATCTAGAAGCTGCTTCTTCGCCTTGTATGCC
ACTCGATTCTCATAGGCGTCTACAAGATACTGCATGAAATCACATATAAATTATTCAGACATCT
AAACCAACCCTCAACTCATAACACCAGCACATTGCTTTCATGTCGTCACCTCATGAACATCTTG
TGCTGATGGCTTGTAGTCATTCTTGGTATTAGTTTGCAGGTTTTGATTTTCCATGTGCACCTTG
TCATCTAACTCGGAAGGAACAGAAACATCAGTAGTGTTTCCGTTGGCGAGATCCAGTAGAAATT
CTGCTGGGTTCATTGCGATGAGCGGGGTGCACCCAATGGACTGAAAGTAGGGCATGGCTTCAGA
TGCCTTCCCAAAATAGAGCAAACTTCCTCTTCCCAGGAGGATAAGCTTGTCAAACTTATGAAAT
AATCTGCTAGATGGTTGATGGATTGTTGTTATTACTGTCTTCCCATCCTGCAACATGTCAAAAG
GTTAAAGATGAATTGAACTAGTTGCCAGCTAATGTGTAATACTCTCATGTCACCTCAGCTATAT
CATGTAGAAGTTGAATTATCCTGAGAGCTGTAGTTGAATCCAATCCAGATGTTGGTTCATCGAG
AAAGAGTAAAGATGGATTTATTATGATCTCATTTCCAATGCAAACTCTTTTCCTTTCACCCCCT
GAAACCCCACGGACGAAAGATCCACCAATCATCGTGTCCTGGCACCTTCAAACATCATCAGATA
ATTAATTAAGCTAATTTCTAAGAATAGGTGCATGCTACCATACAGGAAGTGGAGCGTTTTTCAA
ACTACCTTTCAAGGCCAAGTTCATATATGATGTCTATTGTTCGTTCTTCCTTTTCTTGCCTCGT
CATTGTTCTTGGGAGACGAAGCAGTGCTGCATAAGTCAATGTCTCCTTTACAGTAAGATGAGTA
AAAAGAACATCATCTTGAGTCACAAATCCAATC
						
					

			
		

Sequences
Splice junction sequence	CGTCATTGTTCTTGGGAGACGAAGCAGTGCTGCATAAGTCAATGTCTCCTTTACAGTAAGATGA GTAAAAAGAACATCATCTTGAGTCACAAATCCAATCctgagcagcaatgatgctgaggaagacg gtcaacatgctaagaaagaaatgtgcggcagttgctttgaggcctgccatgaagtagacaatca ccataaat
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: 1231 Transcript exons: 3081240-3081524,3081685-3081972,3082057-3082374,3082445- 3082628,3082717-3082872 CTGAGCAGCAATGATGCTGAGGAAGACGGTCAACATGCTAAGAAAGAAATGTGCGGCAGTTGCT TTGAGGCCTGCCATGAAGTAGACAATCACCATAAATATGACTGGAAGGAAAAGGTCCAGTGGCA GATCACTTGTCGTTCTGGCCAAGAAGTATGCACTGAGCTTGTACATGTCAGCTGCACGCTCCTT GTTCAACATTGCCCTTTCTTGTGGGAATGTGAAGATGGCAGTAAACACAGGAAAGAAACCCCAA AACACAGCTATGAAAAACAGTAAGCCGGCCTGATCTTGTAGACCTTTTGGTGTCGAGGGATCAG AGTGCCACCATAGTAGACCTAAGATAACTGATGTTGCTATGACCTGGGTGATTCTCATCCAGCT CAAATAATCATGTCGCCGTTCTTTGATCCCTCTACAGAAGAGGATGGAATATTGCTGCCACCAG CTAGTGCCCCATTCTCGCTTTGATGATGTTATAGTTGTCTTCATATCGTCACTGATTGGAAGTG GATCTAGAAGCTGCTTCTTCGCCTTGTATGCCACTCGATTCTCATAGGCGTCTACAAGATACTC ATGAACATCTTGTGCTGATGGCTTGTAGTCATTCTTGGTATTAGTTTGCAGGTTTTGATTTTCC ATGTGCACCTTGTCATCTAACTCGGAAGGAACAGAAACATCAGTAGTGTTTCCGTTGGCGAGAT CCAGTAGAAATTCTGCTGGGTTCATTGCGATGAGCGGGGTGCACCCAATGGACTGAAAGTAGGG CATGGCTTCAGATGCCTTCCCAAAATAGAGCAAACTTCCTCTTCCCAGGAGGATAAGCTTGTCA AACTTATGAAATAATCTGCTAGATGGTTGATGGATTGTTGTTATTACTGTCTTCCCATCCTCAG CTATATCATGTAGAAGTTGAATTATCCTGAGAGCTGTAGTTGAATCCAATCCAGATGTTGGTTC ATCGAGAAAGAGTAAAGATGGATTTATTATGATCTCATTTCCAATGCAAACTCTTTTCCTTTCA CCCCCTGAAACCCCACGGACGAAAGATCCACCAATCATCGTGTCCTGGCACCTTTCAAGGCCAA GTTCATATATGATGTCTATTGTTCGTTCTTCCTTTTCTTGCCTCGTCATTGTTCTTGGGAGACG AAGCAGTGCTGCATAAGTCAATGTCTCCTTTACAGTAAGATGAGTAAAAAGAACATCATCTTGA GTCACAAATCCAATC
Genomic sequence	CTGAGCAGCAATGATGCTGAGGAAGACGGTCAACATGCTAAGAAAGAAATGTGCGGCAGTTGCT TTGAGGCCTGCCATGAAGTAGACAATCACCATAAATATGACTGGAAGGAAAAGGTCCAGTGGCA GATCACTTGTCGTTCTGGCCAAGAAGTATGCACTGAGCTTGTACATGTCAGCTGCACGCTCCTT GTTCAACATTGCCCTTTCTTGTGGGAATGTGAAGATGGCAGTAAACACAGGAAAGAAACCCCAA AACACAGCTATGAAAAACAGTAAGCCGGCCTGCATACGCAAGATAAAATTGTGTTATGATACTA ATCTTCCTGCATACCCGAGCTGACATATCATTAATAAGCTCTCTGAGTAACCAACTCCGCCATT TCACATGAATCACATTTTCTTTGGCGTAAAATGAATCGCATGATTATTGCTATCTATGTACCTG ATCTTGTAGACCTTTTGGTGTCGAGGGATCAGAGTGCCACCATAGTAGACCTAAGATAACTGAT GTTGCTATGACCTGGGTGATTCTCATCCAGCTCAAATAATCATGTCGCCGTTCTTTGATCCCTC TACAGAAGAGGATGGAATATTGCTGCCACCAGCTAGTGCCCCATTCTCGCTTTGATGATGTTAT AGTTGTCTTCATATCGTCACTGATTGGAAGTGGATCTAGAAGCTGCTTCTTCGCCTTGTATGCC ACTCGATTCTCATAGGCGTCTACAAGATACTGCATGAAATCACATATAAATTATTCAGACATCT AAACCAACCCTCAACTCATAACACCAGCACATTGCTTTCATGTCGTCACCTCATGAACATCTTG TGCTGATGGCTTGTAGTCATTCTTGGTATTAGTTTGCAGGTTTTGATTTTCCATGTGCACCTTG TCATCTAACTCGGAAGGAACAGAAACATCAGTAGTGTTTCCGTTGGCGAGATCCAGTAGAAATT CTGCTGGGTTCATTGCGATGAGCGGGGTGCACCCAATGGACTGAAAGTAGGGCATGGCTTCAGA TGCCTTCCCAAAATAGAGCAAACTTCCTCTTCCCAGGAGGATAAGCTTGTCAAACTTATGAAAT AATCTGCTAGATGGTTGATGGATTGTTGTTATTACTGTCTTCCCATCCTGCAACATGTCAAAAG GTTAAAGATGAATTGAACTAGTTGCCAGCTAATGTGTAATACTCTCATGTCACCTCAGCTATAT CATGTAGAAGTTGAATTATCCTGAGAGCTGTAGTTGAATCCAATCCAGATGTTGGTTCATCGAG AAAGAGTAAAGATGGATTTATTATGATCTCATTTCCAATGCAAACTCTTTTCCTTTCACCCCCT GAAACCCCACGGACGAAAGATCCACCAATCATCGTGTCCTGGCACCTTCAAACATCATCAGATA ATTAATTAAGCTAATTTCTAAGAATAGGTGCATGCTACCATACAGGAAGTGGAGCGTTTTTCAA ACTACCTTTCAAGGCCAAGTTCATATATGATGTCTATTGTTCGTTCTTCCTTTTCTTGCCTCGT CATTGTTCTTGGGAGACGAAGCAGTGCTGCATAAGTCAATGTCTCCTTTACAGTAAGATGAGTA AAAAGAACATCATCTTGAGTCACAAATCCAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.408647494

Conservation Information
Conserved circRNAs	NA
PMCS	0.408647494

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3082780-3082851(-)
						
						Potential amino acid sequence
						
							MTRQEKEERTIDIIYELGLERCQDTMIGGSFVRGVSGGERKRVCIGNEIIINPSLLFLDEPTSG
LDSTTALRIIQLLHDIAEDGKTVITTIHQPSSRLFHKFDKLILLGRGSLLYFGKASEAMPYFQS
IGCTPLIAMNPAEFLLDLANGNTTDVSVPSELDDKVHMENQNLQTNTKNDYKPSAQDVHEYLVD
AYENRVAYKAKKQLLDPLPISDDMKTTITSSKREWGTSWWQQYSILFCRGIKERRHDYLSWMRI
TQVIATSVILGLLWWHSDPSTPKGLQDQAGLLFFIAVFWGFFPVFTAIFTFPQERAMLNKERAA
DMYKLSAYFLARTTSDLPLDLFLPVIFMVIVYFMAGLKATAAHFFLSMLTVFLSIIAAQDWICD
SR*(-)
						
						Sponge-miRNAs
						
							osa-miR418 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3082780-3082851(-)
Potential amino acid sequence	MTRQEKEERTIDIIYELGLERCQDTMIGGSFVRGVSGGERKRVCIGNEIIINPSLLFLDEPTSG LDSTTALRIIQLLHDIAEDGKTVITTIHQPSSRLFHKFDKLILLGRGSLLYFGKASEAMPYFQS IGCTPLIAMNPAEFLLDLANGNTTDVSVPSELDDKVHMENQNLQTNTKNDYKPSAQDVHEYLVD AYENRVAYKAKKQLLDPLPISDDMKTTITSSKREWGTSWWQQYSILFCRGIKERRHDYLSWMRI TQVIATSVILGLLWWHSDPSTPKGLQDQAGLLFFIAVFWGFFPVFTAIFTFPQERAMLNKERAA DMYKLSAYFLARTTSDLPLDLFLPVIFMVIVYFMAGLKATAAHFFLSMLTVFLSIIAAQDWICD SR*(-)
Sponge-miRNAs	osa-miR418
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os03g0157400_circ_g.1

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