Plant Circular RNA Database

Detail information of Os12g0561200_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0561200_circ_g.1
					
						ID in PlantcircBase
						osa_circ_011975
					
						Alias
						Os12circ08931
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 22975100-22975723  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os12g0561200						
					
						Parent gene annotation
						
							Similar to PAPA-1-like conserved region family protein, expresse
d. (Os12t0561200-01);Zinc finger, HIT-type domain containing pro
tein. (Os12t0561200-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/2
					
						Tissues
						leaf/shoot, 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
						Os12t0561200-01:1
Os12t0561200-02:1

General Information
CircRNA Name	Os12g0561200_circ_g.1
ID in PlantcircBase	osa_circ_011975
Alias	Os12circ08931
Organism	Oryza sativa
Position	chr12: 22975100-22975723 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os12g0561200
Parent gene annotation	Similar to PAPA-1-like conserved region family protein, expresse d. (Os12t0561200-01);Zinc finger, HIT-type domain containing pro tein. (Os12t0561200-02)
Parent gene strand	-
Alternative splicing	NA
Support reads	2/2
Tissues	leaf/shoot, 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	Os12t0561200-01:1 Os12t0561200-02:1

			
						 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  
						
							GCCGCCGCCTCGCCGTGCTGCTGCTCCGGCGCTTCCTCGTGAGCGAATTGTCCAACCTAGAGCC
CTCACGGCCTTCCATTTCGCCCCTCTCTCTCATCACctgactagaatgcttttgccgttgctgc
gaatctcctggccgcggaggcttcacaggcaaagacctggaatgcgacatatcagggcttggtt
tcgccggc

						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: 624
Transcript exons: 22975100-22975723
CTGACTAGAATGCTTTTGCCGTTGCTGCGAATCTCCTGGCCGCGGAGGCTTCACAGGCAAAGAC
CTGGAATGCGACATATCAGGGCTTGGTTTCGCCGGCACGCTACGGCGGATTCCGCCGATCTTGA
GCTTCAACTTCCTTGTTTTATCACCGGTCGACGACTCACGATTCCCTGCCGAAACAACCGCACC
ATGGCCGCTCTCGCCCTTCCTGGAGCTACCACCACCACCACCACCCGAGCCCTCGGAATGCAGC
TGGTTGCTCCCCTTGGTCTTGTGCGAGCTTCTCGGGTTAGGATTGGAGGACATAGCGCCGCCCT
CCATCGCCGCACGCCTCGCGGCACGATCCGGGGAAGGGGCATTCAGATGGATCTCTCGCCTCTG
GTGCTCCTCCCCATCGGAGTTGGCATCCTCATCCGAGCCAATCGCCGACGAAGAAGACGAGGAG
TAGCCGTCTCGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTCCACATCCACGACATGATTGC
TCTCCGGCCTCGGCCGCCGCCTCGCCGTGCTGCTGCTCCGGCGCTTCCTCGTGAGCGAATTGTC
CAACCTAGAGCCCTCACGGCCTTCCATTTCGCCCCTCTCTCTCATCAC
						
						Genomic sequence
						
							CTGACTAGAATGCTTTTGCCGTTGCTGCGAATCTCCTGGCCGCGGAGGCTTCACAGGCAAAGAC
CTGGAATGCGACATATCAGGGCTTGGTTTCGCCGGCACGCTACGGCGGATTCCGCCGATCTTGA
GCTTCAACTTCCTTGTTTTATCACCGGTCGACGACTCACGATTCCCTGCCGAAACAACCGCACC
ATGGCCGCTCTCGCCCTTCCTGGAGCTACCACCACCACCACCACCCGAGCCCTCGGAATGCAGC
TGGTTGCTCCCCTTGGTCTTGTGCGAGCTTCTCGGGTTAGGATTGGAGGACATAGCGCCGCCCT
CCATCGCCGCACGCCTCGCGGCACGATCCGGGGAAGGGGCATTCAGATGGATCTCTCGCCTCTG
GTGCTCCTCCCCATCGGAGTTGGCATCCTCATCCGAGCCAATCGCCGACGAAGAAGACGAGGAG
TAGCCGTCTCGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTCCACATCCACGACATGATTGC
TCTCCGGCCTCGGCCGCCGCCTCGCCGTGCTGCTGCTCCGGCGCTTCCTCGTGAGCGAATTGTC
CAACCTAGAGCCCTCACGGCCTTCCATTTCGCCCCTCTCTCTCATCAC

Sequences
Splice junction sequence	GCCGCCGCCTCGCCGTGCTGCTGCTCCGGCGCTTCCTCGTGAGCGAATTGTCCAACCTAGAGCC CTCACGGCCTTCCATTTCGCCCCTCTCTCTCATCACctgactagaatgcttttgccgttgctgc gaatctcctggccgcggaggcttcacaggcaaagacctggaatgcgacatatcagggcttggtt tcgccggc
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: 624 Transcript exons: 22975100-22975723 CTGACTAGAATGCTTTTGCCGTTGCTGCGAATCTCCTGGCCGCGGAGGCTTCACAGGCAAAGAC CTGGAATGCGACATATCAGGGCTTGGTTTCGCCGGCACGCTACGGCGGATTCCGCCGATCTTGA GCTTCAACTTCCTTGTTTTATCACCGGTCGACGACTCACGATTCCCTGCCGAAACAACCGCACC ATGGCCGCTCTCGCCCTTCCTGGAGCTACCACCACCACCACCACCCGAGCCCTCGGAATGCAGC TGGTTGCTCCCCTTGGTCTTGTGCGAGCTTCTCGGGTTAGGATTGGAGGACATAGCGCCGCCCT CCATCGCCGCACGCCTCGCGGCACGATCCGGGGAAGGGGCATTCAGATGGATCTCTCGCCTCTG GTGCTCCTCCCCATCGGAGTTGGCATCCTCATCCGAGCCAATCGCCGACGAAGAAGACGAGGAG TAGCCGTCTCGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTCCACATCCACGACATGATTGC TCTCCGGCCTCGGCCGCCGCCTCGCCGTGCTGCTGCTCCGGCGCTTCCTCGTGAGCGAATTGTC CAACCTAGAGCCCTCACGGCCTTCCATTTCGCCCCTCTCTCTCATCAC
Genomic sequence	CTGACTAGAATGCTTTTGCCGTTGCTGCGAATCTCCTGGCCGCGGAGGCTTCACAGGCAAAGAC CTGGAATGCGACATATCAGGGCTTGGTTTCGCCGGCACGCTACGGCGGATTCCGCCGATCTTGA GCTTCAACTTCCTTGTTTTATCACCGGTCGACGACTCACGATTCCCTGCCGAAACAACCGCACC ATGGCCGCTCTCGCCCTTCCTGGAGCTACCACCACCACCACCACCCGAGCCCTCGGAATGCAGC TGGTTGCTCCCCTTGGTCTTGTGCGAGCTTCTCGGGTTAGGATTGGAGGACATAGCGCCGCCCT CCATCGCCGCACGCCTCGCGGCACGATCCGGGGAAGGGGCATTCAGATGGATCTCTCGCCTCTG GTGCTCCTCCCCATCGGAGTTGGCATCCTCATCCGAGCCAATCGCCGACGAAGAAGACGAGGAG TAGCCGTCTCGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTGCTCCACATCCACGACATGATTGC TCTCCGGCCTCGGCCGCCGCCTCGCCGTGCTGCTGCTCCGGCGCTTCCTCGTGAGCGAATTGTC CAACCTAGAGCCCTCACGGCCTTCCATTTCGCCCCTCTCTCTCATCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003481* osi_circ_009824 						
					
						PMCS
						0.343654594

Conservation Information
Conserved circRNAs	osi_circ_003481* osi_circ_009824
PMCS	0.343654594

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							22975110-22975720(+)
22975722-22975102(-)
						
					

						Potential amino acid sequence
						
							MLLPLLRISWPRRLHRQRPGMRHIRAWFRRHATADSADLELQLPCFITGRRLTIPCRNNRTMAA
LALPGATTTTTTRALGMQLVAPLGLVRASRVRIGGHSAALHRRTPRGTIRGRGIQMDLSPLVLL
PIGVGILIRANRRRRRRGVAVSLLLLLLLLLLLHIHDMIALRPRPPPRRAAAPALPRERIVQPR
ALTAFHFAPLSHHLTRMLLPLLRISWPRRLHRQRPGMRHIRAWFRRHATADSADLELQLPCFIT
GRRLTIPCRNNRTMAALALPGATTTTTTRALGMQLVAPLGLVRASRVRIGGHSAALHRRTPRGT
IRGRGIQMDLSPLVLLPIGVGILIRANRRRRRRGVAVSLLLLLLLLLLLHIHDMIALRPRPPPR
RAAAPALPRERIVQPRALTAFHFAPLSHHLTRMLLPLLRISWPRRLHRQRPGMRHIRAWFRRHA
TADSADLELQLPCFITGRRLTIPCRNNRTMAALALPGATTTTTTRALGMQLVAPLGLVRASRVR
IGGHSAALHRRTPRGTIRGRGIQMDLSPLVLLPIGVGILIRANRRRRRRGVAVSLLLLLLLLLL
LHIHDMIALRPRPPPRRAAAPALPRERIVQPRALTAFHFAPLSHHLTRMLLPLLRISWPRRLHR
QRPGMRHIRAWFRRHATADSADLELQLPCFITGRRLTIPCRNNRTMAALALPGATTTTTTRALG
MQLVAPLGLVRASRVRIGGHSAALHRRTPRGTIRGRGIQMDLSPLVLLPIGVGILIRANRRRRR
RGVAVSLLLLLLLLLLLHIHDMIALRPRPPPRRAAAPALPRERIVQPRALTAFHFAPLSHH(+)
MRERGEMEGREGSRLDNSLTRKRRSSSTARRRPRPESNHVVDVEQQQQQQQQQQRDGYSSSSSS
AIGSDEDANSDGEEHQRREIHLNAPSPDRAARRAAMEGGAMSSNPNPRSSHKTKGSNQLHSEGS
GGGGGGSSRKGESGHGAVVSAGNRESSTGDKTRKLKLKIGGIRRSVPAKPSPDMSHSRSLPVKP
PRPGDSQQRQKHSSQVMRERGEMEGREGSRLDNSLTRKRRSSSTARRRPRPESNHVVDVEQQQQ
QQQQQQRDGYSSSSSSAIGSDEDANSDGEEHQRREIHLNAPSPDRAARRAAMEGGAMSSNPNPR
SSHKTKGSNQLHSEGSGGGGGGSSRKGESGHGAVVSAGNRESSTGDKTRKLKLKIGGIRRSVPA
KPSPDMSHSRSLPVKPPRPGDSQQRQKHSSQVMRERGEMEGREGSRLDNSLTRKRRSSSTARRR
PRPESNHVVDVEQQQQQQQQQQRDGYSSSSSSAIGSDEDANSDGEEHQRREIHLNAPSPDRAAR
RAAMEGGAMSSNPNPRSSHKTKGSNQLHSEGSGGGGGGSSRKGESGHGAVVSAGNRESSTGDKT
RKLKLKIGGIRRSVPAKPSPDMSHSRSLPVKPPRPGDSQQRQKHSSQVMRERGEMEGREGSRLD
NSLTRKRRSSSTARRRPRPESNHVVDVEQQQQQQQQQQRDGYSSSSSSAIGSDEDANSDGEEHQ
RREIHLNAPSPDRAARRAAMEGGAMSSNPNPRSSHKTKGSNQLHSEGSGGGGGGSSRKGESGHG
AVVSAGNRESSTGDKTRKLKLKIGGIRRSVPAKPSPDMSHSRSLPVKPPRPGDSQQRQKHSSQ(
-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	22975110-22975720(+) 22975722-22975102(-)
Potential amino acid sequence	MLLPLLRISWPRRLHRQRPGMRHIRAWFRRHATADSADLELQLPCFITGRRLTIPCRNNRTMAA LALPGATTTTTTRALGMQLVAPLGLVRASRVRIGGHSAALHRRTPRGTIRGRGIQMDLSPLVLL PIGVGILIRANRRRRRRGVAVSLLLLLLLLLLLHIHDMIALRPRPPPRRAAAPALPRERIVQPR ALTAFHFAPLSHHLTRMLLPLLRISWPRRLHRQRPGMRHIRAWFRRHATADSADLELQLPCFIT GRRLTIPCRNNRTMAALALPGATTTTTTRALGMQLVAPLGLVRASRVRIGGHSAALHRRTPRGT IRGRGIQMDLSPLVLLPIGVGILIRANRRRRRRGVAVSLLLLLLLLLLLHIHDMIALRPRPPPR RAAAPALPRERIVQPRALTAFHFAPLSHHLTRMLLPLLRISWPRRLHRQRPGMRHIRAWFRRHA TADSADLELQLPCFITGRRLTIPCRNNRTMAALALPGATTTTTTRALGMQLVAPLGLVRASRVR IGGHSAALHRRTPRGTIRGRGIQMDLSPLVLLPIGVGILIRANRRRRRRGVAVSLLLLLLLLLL LHIHDMIALRPRPPPRRAAAPALPRERIVQPRALTAFHFAPLSHHLTRMLLPLLRISWPRRLHR QRPGMRHIRAWFRRHATADSADLELQLPCFITGRRLTIPCRNNRTMAALALPGATTTTTTRALG MQLVAPLGLVRASRVRIGGHSAALHRRTPRGTIRGRGIQMDLSPLVLLPIGVGILIRANRRRRR RGVAVSLLLLLLLLLLLHIHDMIALRPRPPPRRAAAPALPRERIVQPRALTAFHFAPLSHH(+) MRERGEMEGREGSRLDNSLTRKRRSSSTARRRPRPESNHVVDVEQQQQQQQQQQRDGYSSSSSS AIGSDEDANSDGEEHQRREIHLNAPSPDRAARRAAMEGGAMSSNPNPRSSHKTKGSNQLHSEGS GGGGGGSSRKGESGHGAVVSAGNRESSTGDKTRKLKLKIGGIRRSVPAKPSPDMSHSRSLPVKP PRPGDSQQRQKHSSQVMRERGEMEGREGSRLDNSLTRKRRSSSTARRRPRPESNHVVDVEQQQQ QQQQQQRDGYSSSSSSAIGSDEDANSDGEEHQRREIHLNAPSPDRAARRAAMEGGAMSSNPNPR SSHKTKGSNQLHSEGSGGGGGGSSRKGESGHGAVVSAGNRESSTGDKTRKLKLKIGGIRRSVPA KPSPDMSHSRSLPVKPPRPGDSQQRQKHSSQVMRERGEMEGREGSRLDNSLTRKRRSSSTARRR PRPESNHVVDVEQQQQQQQQQQRDGYSSSSSSAIGSDEDANSDGEEHQRREIHLNAPSPDRAAR RAAMEGGAMSSNPNPRSSHKTKGSNQLHSEGSGGGGGGSSRKGESGHGAVVSAGNRESSTGDKT RKLKLKIGGIRRSVPAKPSPDMSHSRSLPVKPPRPGDSQQRQKHSSQVMRERGEMEGREGSRLD NSLTRKRRSSSTARRRPRPESNHVVDVEQQQQQQQQQQRDGYSSSSSSAIGSDEDANSDGEEHQ RREIHLNAPSPDRAARRAAMEGGAMSSNPNPRSSHKTKGSNQLHSEGSGGGGGGSSRKGESGHG AVVSAGNRESSTGDKTRKLKLKIGGIRRSVPAKPSPDMSHSRSLPVKPPRPGDSQQRQKHSSQ( -)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Chu et al., 2017

circRNA

Detail information of Os12g0561200_circ_g.1

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