Plant Circular RNA Database

Detail information of Os07g0551600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0551600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_034214
					
						Alias
						Os_ciR11004
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 21904700-21905429  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os07g0551600						
					
						Parent gene annotation
						
							Similar to Cellulose synthase-like CslF9. (Os07t0551600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						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  
						
							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
						Os07t0551600-01:1

General Information
CircRNA Name	Os07g0551600_circ_g.1
ID in PlantcircBase	osa_circ_034214
Alias	Os_ciR11004
Organism	Oryza sativa
Position	chr7: 21904700-21905429 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os07g0551600
Parent gene annotation	Similar to Cellulose synthase-like CslF9. (Os07t0551600-01)
Parent gene strand	-
Alternative splicing	NA
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	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	Os07t0551600-01:1

			
						 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  
						
							GATCGAGATCCACCAGAGCCACATGGCGTCGGAGTCCCGGTGCTTCAGGCGCCATGCGAGGAAG
AGGACGACGGCGATCAGCCTGACTAAGGTCAGTAACcttaacgattccggcgtgctgtcctttt
ttgtgattctctgctggctcggtccatgtccctggccaaggggtcccatctgccatcagagtgg
ccttcgcg

						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
						
							CTTAACGATTCCGGCGTGCTGTCCTTTTTTGTGATTCTCTGCTGGCTCGGTCCATGTCCCTGGC
CAAGGGGTCCCATCTGCCATCAGAGTGGCCTTCGCGCCTTTGGTGTTTGCATTGCCAACACTCG
CTTCCGATCGTTGCGGAATGTCAGTGAACAGCGCATCGAGCCGCGCCTTGAACTCCTCGTACTC
CCGGCGCACGAGCCTGCGGTCGCCGAAGAACTCCTCCGGCAGCGCCGGCCCGGCGTACGGCGCC
GCCTTCGCCGCGAAGTAGCTCTCGGGCGCCCTCGGCTCGACGCGGTGCTTCCGGCAGAACGGGA
CCCACAGCGCGGCGAACCTCGCCGTCTCGATCAGCCCCTCGTAGTGGGCCAGCGACGCGCCGTC
GTCGGAGAGGTAGGCGGCGTGCCGGTCGGCGGGGTAGTCGGTGGCGAGGATGGACAGGATGGAG
TTCATGGTGTAGAGCATCGGCTCGTCGACGGGGTCGACGGTGTTGATGAACACGTCGATGCCGG
GGAGGCCGCCGTCGTCGAAGCGCCGCCTGAGGAGGGAGAGGTCGGGGACGCGCTTGACGGGGTT
GAGCTTGGAGGCCTGGTTGAGCAGCCAGGTGACGCCGAACCAGAAGTCGCCGGCGATCGAGATC
CACCAGAGCCACATGGCGTCGGAGTCCCGGTGCTTCAGGCGCCATGCGAGGAAGAGGACGACGG
CGATCAGCCTGACTAAGGTCAGTAAC

Sequences
Splice junction sequence	GATCGAGATCCACCAGAGCCACATGGCGTCGGAGTCCCGGTGCTTCAGGCGCCATGCGAGGAAG AGGACGACGGCGATCAGCCTGACTAAGGTCAGTAACcttaacgattccggcgtgctgtcctttt ttgtgattctctgctggctcggtccatgtccctggccaaggggtcccatctgccatcagagtgg ccttcgcg
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	CTTAACGATTCCGGCGTGCTGTCCTTTTTTGTGATTCTCTGCTGGCTCGGTCCATGTCCCTGGC CAAGGGGTCCCATCTGCCATCAGAGTGGCCTTCGCGCCTTTGGTGTTTGCATTGCCAACACTCG CTTCCGATCGTTGCGGAATGTCAGTGAACAGCGCATCGAGCCGCGCCTTGAACTCCTCGTACTC CCGGCGCACGAGCCTGCGGTCGCCGAAGAACTCCTCCGGCAGCGCCGGCCCGGCGTACGGCGCC GCCTTCGCCGCGAAGTAGCTCTCGGGCGCCCTCGGCTCGACGCGGTGCTTCCGGCAGAACGGGA CCCACAGCGCGGCGAACCTCGCCGTCTCGATCAGCCCCTCGTAGTGGGCCAGCGACGCGCCGTC GTCGGAGAGGTAGGCGGCGTGCCGGTCGGCGGGGTAGTCGGTGGCGAGGATGGACAGGATGGAG TTCATGGTGTAGAGCATCGGCTCGTCGACGGGGTCGACGGTGTTGATGAACACGTCGATGCCGG GGAGGCCGCCGTCGTCGAAGCGCCGCCTGAGGAGGGAGAGGTCGGGGACGCGCTTGACGGGGTT GAGCTTGGAGGCCTGGTTGAGCAGCCAGGTGACGCCGAACCAGAAGTCGCCGGCGATCGAGATC CACCAGAGCCACATGGCGTCGGAGTCCCGGTGCTTCAGGCGCCATGCGAGGAAGAGGACGACGG CGATCAGCCTGACTAAGGTCAGTAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.187287797

Conservation Information
Conserved circRNAs	NA
PMCS	0.187287797

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							21905194-21905416(+)
21905355-21904850(-)
21904778-21904850(-)
						
					

						Potential amino acid sequence
						
							MNTSMPGRPPSSKRRLRRERSGTRLTGLSLEAWLSSQVTPNQKSPAIEIHQSHMASESRCFRRH
ARKRTTAISLTKVSNLNDSGVLSFFVILCWLGPCPWPRGPICHQSGLRAFGVCIANTRFRSLRN
VSEQRIEPRLELLVLPAHEPAVAEELLRQRRPGVRRRLRREVALGRPRLDAVLPAERDPQRGEP
RRLDQPLVVGQRRAVVGEVGGVPVGGVVGGEDGQDGVHGVEHRLVDGVDGVDEHVDAGEAAVVE
APPEEGEVGDALDGVELGGLVEQPGDAEPEVAGDRDPPEPHGVGVPVLQAPCEEEDDGDQPD*(
+)
MWLWWISIAGDFWFGVTWLLNQASKLNPVKRVPDLSLLRRRFDDGGLPGIDVFINTVDPVDEPM
LYTMNSILSILATDYPADRHAAYLSDDGASLAHYEGLIETARFAALWVPFCRKHRVEPRAPESY
FAAKAAPYAGPALPEEFFGDRRLVRREYEEFKARLDALFTDIPQRSEASVGNANTKGAKATLMA
DGTPWPGTWTEPAENHKKGQHAGIVKVTDLSQADRRRPLPRMAPEAPGLRRHVALVDLDRRRLL
VRRHLAAQPGLQAQPRQARPRPLPPQAALRRRRPPRHRRVHQHRRPRRRADALHHELHPVHPRH
RLPRRPARRLPLRRRRVAGPLRGADRDGEVRRAVGPVLPEAPRRAEGARELLRGEGGAVRRAGA
AGGVLRRPQARAPGVRGVQGAARCAVH*(-)
MGPLGQGHGPSQQRITKKDSTPESLRLLTLVRLIAVVLFLAWRLKHRDSDAMWLWWISIAGDFW
FGVTWLLNQASKLNPVKRVPDLSLLRRRFDDGGLPGIDVFINTVDPVDEPMLYTMNSILSILAT
DYPADRHAAYLSDDGASLAHYEGLIETARFAALWVPFCRKHRVEPRAPESYFAAKAAPYAGPAL
PEEFFGDRRLVRREYEEFKARLDALFTDIPQRSEASVGNANTKGAKATLMADGTPWPGTWTEPA
ENHKKGQHAGIVKVTDLSQADRRRPLPRMAPEAPGLRRHVALVDLDRRRLLVRRHLAAQPGLQA
QPRQARPRPLPPQAALRRRRPPRHRRVHQHRRPRRRADALHHELHPVHPRHRLPRRPARRLPLR
RRRVAGPLRGADRDGEVRRAVGPVLPEAPRRAEGARELLRGEGGAVRRAGAAGGVLRRPQARAP
GVRGVQGAARCAVH*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	21905194-21905416(+) 21905355-21904850(-) 21904778-21904850(-)
Potential amino acid sequence	MNTSMPGRPPSSKRRLRRERSGTRLTGLSLEAWLSSQVTPNQKSPAIEIHQSHMASESRCFRRH ARKRTTAISLTKVSNLNDSGVLSFFVILCWLGPCPWPRGPICHQSGLRAFGVCIANTRFRSLRN VSEQRIEPRLELLVLPAHEPAVAEELLRQRRPGVRRRLRREVALGRPRLDAVLPAERDPQRGEP RRLDQPLVVGQRRAVVGEVGGVPVGGVVGGEDGQDGVHGVEHRLVDGVDGVDEHVDAGEAAVVE APPEEGEVGDALDGVELGGLVEQPGDAEPEVAGDRDPPEPHGVGVPVLQAPCEEEDDGDQPD( +) MWLWWISIAGDFWFGVTWLLNQASKLNPVKRVPDLSLLRRRFDDGGLPGIDVFINTVDPVDEPM LYTMNSILSILATDYPADRHAAYLSDDGASLAHYEGLIETARFAALWVPFCRKHRVEPRAPESY FAAKAAPYAGPALPEEFFGDRRLVRREYEEFKARLDALFTDIPQRSEASVGNANTKGAKATLMA DGTPWPGTWTEPAENHKKGQHAGIVKVTDLSQADRRRPLPRMAPEAPGLRRHVALVDLDRRRLL VRRHLAAQPGLQAQPRQARPRPLPPQAALRRRRPPRHRRVHQHRRPRRRADALHHELHPVHPRH RLPRRPARRLPLRRRRVAGPLRGADRDGEVRRAVGPVLPEAPRRAEGARELLRGEGGAVRRAGA AGGVLRRPQARAPGVRGVQGAARCAVH(-) MGPLGQGHGPSQQRITKKDSTPESLRLLTLVRLIAVVLFLAWRLKHRDSDAMWLWWISIAGDFW FGVTWLLNQASKLNPVKRVPDLSLLRRRFDDGGLPGIDVFINTVDPVDEPMLYTMNSILSILAT DYPADRHAAYLSDDGASLAHYEGLIETARFAALWVPFCRKHRVEPRAPESYFAAKAAPYAGPAL PEEFFGDRRLVRREYEEFKARLDALFTDIPQRSEASVGNANTKGAKATLMADGTPWPGTWTEPA ENHKKGQHAGIVKVTDLSQADRRRPLPRMAPEAPGLRRHVALVDLDRRRLLVRRHLAAQPGLQA QPRQARPRPLPPQAALRRRRPPRHRRVHQHRRPRRRADALHHELHPVHPRHRLPRRPARRLPLR RRRVAGPLRGADRDGEVRRAVGPVLPEAPRRAEGARELLRGEGGAVRRAGAAGGVLRRPQARAP GVRGVQGAARCAVH*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os07g0551600_circ_g.1

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