Plant Circular RNA Database

Detail information of Os10g0544500_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os10g0544500_circ_g.3
					
						ID in PlantcircBase
						osa_circ_007874
					
						Alias
						Os_ciR6873
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 21254357-21255668  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os10g0544500						
					
						Parent gene annotation
						
							WD40 repeat-like domain containing protein. (Os10t0544500-01);Si
milar to nucleotide binding protein. (Os10t0544500-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os10g0544500_circ_g.4 Os10g0544500_circ_g.5 Os10g0544500_circ_g.6 Os10g0544500_circ_g.7 						
					
						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
						Os10t0544500-02:3
Os10t0544500-01:3

General Information
CircRNA Name	Os10g0544500_circ_g.3
ID in PlantcircBase	osa_circ_007874
Alias	Os_ciR6873
Organism	Oryza sativa
Position	chr10: 21254357-21255668 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os10g0544500
Parent gene annotation	WD40 repeat-like domain containing protein. (Os10t0544500-01);Si milar to nucleotide binding protein. (Os10t0544500-02)
Parent gene strand	+
Alternative splicing	Os10g0544500_circ_g.4 Os10g0544500_circ_g.5 Os10g0544500_circ_g.6 Os10g0544500_circ_g.7
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	Os10t0544500-02:3 Os10t0544500-01:3

			
						 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  
						
							TCCGCACACTATGACAATTGCAAGCAGCGGAATCGATAATGACGTAAAGATATGGACTCCCTCT
GCCACTGAGCGAGCACCAGTGGTAAACATTGAGGAGgatcttgtaatgcgcctgcaggttcaca
ggaagctcaacaggcatacaggctgcgtgaacacggtaggcttcaacgcggatggcgataccct
catatcgg

									
								

					

						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: 1116
Transcript exons: 21254357-21254608,21254696-21254839,21254949-21255668
GATCTTGTAATGCGCCTGCAGGTTCACAGGAAGCTCAACAGGCATACAGGCTGCGTGAACACGG
TAGGCTTCAACGCGGATGGCGATACCCTCATATCGGGGTCCGATGACCAGATGGTGATGCTGTG
GGACTGGGACACTGGTGCAATCAAATTACAGTTTCCTTCAGGCCATAGCAACAATGTGTTCCAA
GCCCGTTTCATGCCATACACGAACGATCAAACCATTGTCACTTGTGCTGCTGATGGAGAGGTGA
GACTTGCCAAGATAGGGGATGGTGGAGATGTACCTACTACATTGCTAGGCGATCATGATGGAAG
GGCTCACAAGTTGGCCATTGAGCCTGGCAGTCCTTATATTTTCTATAGCTGCGGCGAAGATGGG
CTTGTTCAACATTTTGATTTGAGGACAAATACAGCCACAAAATTATTTCAGTGCAGAAACTCTT
TGAGTAAATCAGGACACTCTTCCAATATTCATCTTAATGCAATCACAATAGATCCGAGGAATCC
AAATCTTCTTGCAGTTGGAGGAAGCAATTGTTATGCTCGTGTCTATGACATCCGCAAATACAAA
TGGGATGGATCTTCTGATTACCCATCTGACTGCTACTGTCCACCACATCTTATTGGCAATAGAT
TTGTTGGAATAACAGGCTTAGCATTCTCTCACCAGAGTGAGTTGCTTATATCTTACAACAATGA
GAATATTTATCTCTTCCCTAAAAATGGAGGACTGGGACCAGACCCAAAGTCATCTGTCAAGATT
GAAGCCAACAAAGGGTCCAAATCAACAATAGTTTCATCTGGAGAAGATGTTGATCGACCTGCAC
CACTGATGTATGCTGGACATCGCAATTGTGAGACTGTCAAGGGAGTGACATTCATTGGGCCAAA
TCATGAATATGTCGCCAGTGGGTCAGACTGTGGGCGATTATTTATTTGGAGAAAGAAAGATGGG
AAGTTTTTGCGGGCAATGGAGGGTGATGAATGTGTTGTAAACTGTATTGAGCCCCATCCGCACA
CTATGACAATTGCAAGCAGCGGAATCGATAATGACGTAAAGATATGGACTCCCTCTGCCACTGA
GCGAGCACCAGTGGTAAACATTGAGGAG
						
					

						Genomic sequence
						
							GATCTTGTAATGCGCCTGCAGGTTCACAGGAAGCTCAACAGGCATACAGGCTGCGTGAACACGG
TAGGCTTCAACGCGGATGGCGATACCCTCATATCGGGGTCCGATGACCAGATGGTGATGCTGTG
GGACTGGGACACTGGTGCAATCAAATTACAGTTTCCTTCAGGCCATAGCAACAATGTGTTCCAA
GCCCGTTTCATGCCATACACGAACGATCAAACCATTGTCACTTGTGCTGCTGATGGAGAGGTTA
ATGGACGTATTGTGTTGTTTTGATCTTTTGATATAAATTACATTTTAGATATTTCAGATGTAAT
CATGTGTTACTGCAAACAGGTGAGACTTGCCAAGATAGGGGATGGTGGAGATGTACCTACTACA
TTGCTAGGCGATCATGATGGAAGGGCTCACAAGTTGGCCATTGAGCCTGGCAGTCCTTATATTT
TCTATAGCTGCGGCGAAGATGGGCTTGTTCAACATGTAGGGAACCACGGACCCCCTCCCTCCTT
CACAAATGCTCATTTTCAGCTATGTATAAAATGCAAATGAATTTCTTACTGTATAACTAGCCAC
TTCCCTTCTTGTGCAGTTTGATTTGAGGACAAATACAGCCACAAAATTATTTCAGTGCAGAAAC
TCTTTGAGTAAATCAGGACACTCTTCCAATATTCATCTTAATGCAATCACAATAGATCCGAGGA
ATCCAAATCTTCTTGCAGTTGGAGGAAGCAATTGTTATGCTCGTGTCTATGACATCCGCAAATA
CAAATGGGATGGATCTTCTGATTACCCATCTGACTGCTACTGTCCACCACATCTTATTGGCAAT
AGATTTGTTGGAATAACAGGCTTAGCATTCTCTCACCAGAGTGAGTTGCTTATATCTTACAACA
ATGAGAATATTTATCTCTTCCCTAAAAATGGAGGACTGGGACCAGACCCAAAGTCATCTGTCAA
GATTGAAGCCAACAAAGGGTCCAAATCAACAATAGTTTCATCTGGAGAAGATGTTGATCGACCT
GCACCACTGATGTATGCTGGACATCGCAATTGTGAGACTGTCAAGGGAGTGACATTCATTGGGC
CAAATCATGAATATGTCGCCAGTGGGTCAGACTGTGGGCGATTATTTATTTGGAGAAAGAAAGA
TGGGAAGTTTTTGCGGGCAATGGAGGGTGATGAATGTGTTGTAAACTGTATTGAGCCCCATCCG
CACACTATGACAATTGCAAGCAGCGGAATCGATAATGACGTAAAGATATGGACTCCCTCTGCCA
CTGAGCGAGCACCAGTGGTAAACATTGAGGAG
						
					

			
		

Sequences
Splice junction sequence	TCCGCACACTATGACAATTGCAAGCAGCGGAATCGATAATGACGTAAAGATATGGACTCCCTCT GCCACTGAGCGAGCACCAGTGGTAAACATTGAGGAGgatcttgtaatgcgcctgcaggttcaca ggaagctcaacaggcatacaggctgcgtgaacacggtaggcttcaacgcggatggcgataccct catatcgg
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: 1116 Transcript exons: 21254357-21254608,21254696-21254839,21254949-21255668 GATCTTGTAATGCGCCTGCAGGTTCACAGGAAGCTCAACAGGCATACAGGCTGCGTGAACACGG TAGGCTTCAACGCGGATGGCGATACCCTCATATCGGGGTCCGATGACCAGATGGTGATGCTGTG GGACTGGGACACTGGTGCAATCAAATTACAGTTTCCTTCAGGCCATAGCAACAATGTGTTCCAA GCCCGTTTCATGCCATACACGAACGATCAAACCATTGTCACTTGTGCTGCTGATGGAGAGGTGA GACTTGCCAAGATAGGGGATGGTGGAGATGTACCTACTACATTGCTAGGCGATCATGATGGAAG GGCTCACAAGTTGGCCATTGAGCCTGGCAGTCCTTATATTTTCTATAGCTGCGGCGAAGATGGG CTTGTTCAACATTTTGATTTGAGGACAAATACAGCCACAAAATTATTTCAGTGCAGAAACTCTT TGAGTAAATCAGGACACTCTTCCAATATTCATCTTAATGCAATCACAATAGATCCGAGGAATCC AAATCTTCTTGCAGTTGGAGGAAGCAATTGTTATGCTCGTGTCTATGACATCCGCAAATACAAA TGGGATGGATCTTCTGATTACCCATCTGACTGCTACTGTCCACCACATCTTATTGGCAATAGAT TTGTTGGAATAACAGGCTTAGCATTCTCTCACCAGAGTGAGTTGCTTATATCTTACAACAATGA GAATATTTATCTCTTCCCTAAAAATGGAGGACTGGGACCAGACCCAAAGTCATCTGTCAAGATT GAAGCCAACAAAGGGTCCAAATCAACAATAGTTTCATCTGGAGAAGATGTTGATCGACCTGCAC CACTGATGTATGCTGGACATCGCAATTGTGAGACTGTCAAGGGAGTGACATTCATTGGGCCAAA TCATGAATATGTCGCCAGTGGGTCAGACTGTGGGCGATTATTTATTTGGAGAAAGAAAGATGGG AAGTTTTTGCGGGCAATGGAGGGTGATGAATGTGTTGTAAACTGTATTGAGCCCCATCCGCACA CTATGACAATTGCAAGCAGCGGAATCGATAATGACGTAAAGATATGGACTCCCTCTGCCACTGA GCGAGCACCAGTGGTAAACATTGAGGAG
Genomic sequence	GATCTTGTAATGCGCCTGCAGGTTCACAGGAAGCTCAACAGGCATACAGGCTGCGTGAACACGG TAGGCTTCAACGCGGATGGCGATACCCTCATATCGGGGTCCGATGACCAGATGGTGATGCTGTG GGACTGGGACACTGGTGCAATCAAATTACAGTTTCCTTCAGGCCATAGCAACAATGTGTTCCAA GCCCGTTTCATGCCATACACGAACGATCAAACCATTGTCACTTGTGCTGCTGATGGAGAGGTTA ATGGACGTATTGTGTTGTTTTGATCTTTTGATATAAATTACATTTTAGATATTTCAGATGTAAT CATGTGTTACTGCAAACAGGTGAGACTTGCCAAGATAGGGGATGGTGGAGATGTACCTACTACA TTGCTAGGCGATCATGATGGAAGGGCTCACAAGTTGGCCATTGAGCCTGGCAGTCCTTATATTT TCTATAGCTGCGGCGAAGATGGGCTTGTTCAACATGTAGGGAACCACGGACCCCCTCCCTCCTT CACAAATGCTCATTTTCAGCTATGTATAAAATGCAAATGAATTTCTTACTGTATAACTAGCCAC TTCCCTTCTTGTGCAGTTTGATTTGAGGACAAATACAGCCACAAAATTATTTCAGTGCAGAAAC TCTTTGAGTAAATCAGGACACTCTTCCAATATTCATCTTAATGCAATCACAATAGATCCGAGGA ATCCAAATCTTCTTGCAGTTGGAGGAAGCAATTGTTATGCTCGTGTCTATGACATCCGCAAATA CAAATGGGATGGATCTTCTGATTACCCATCTGACTGCTACTGTCCACCACATCTTATTGGCAAT AGATTTGTTGGAATAACAGGCTTAGCATTCTCTCACCAGAGTGAGTTGCTTATATCTTACAACA ATGAGAATATTTATCTCTTCCCTAAAAATGGAGGACTGGGACCAGACCCAAAGTCATCTGTCAA GATTGAAGCCAACAAAGGGTCCAAATCAACAATAGTTTCATCTGGAGAAGATGTTGATCGACCT GCACCACTGATGTATGCTGGACATCGCAATTGTGAGACTGTCAAGGGAGTGACATTCATTGGGC CAAATCATGAATATGTCGCCAGTGGGTCAGACTGTGGGCGATTATTTATTTGGAGAAAGAAAGA TGGGAAGTTTTTGCGGGCAATGGAGGGTGATGAATGTGTTGTAAACTGTATTGAGCCCCATCCG CACACTATGACAATTGCAAGCAGCGGAATCGATAATGACGTAAAGATATGGACTCCCTCTGCCA CTGAGCGAGCACCAGTGGTAAACATTGAGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002930* 						
					
						PMCS
						0.340430729

Conservation Information
Conserved circRNAs	osi_circ_002930*
PMCS	0.340430729

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							21254367-21255665(+)
21254403-21255488(-)
						
					

						Potential amino acid sequence
						
							MRLQVHRKLNRHTGCVNTVGFNADGDTLISGSDDQMVMLWDWDTGAIKLQFPSGHSNNVFQARF
MPYTNDQTIVTCAADGEVRLAKIGDGGDVPTTLLGDHDGRAHKLAIEPGSPYIFYSCGEDGLVQ
HFDLRTNTATKLFQCRNSLSKSGHSSNIHLNAITIDPRNPNLLAVGGSNCYARVYDIRKYKWDG
SSDYPSDCYCPPHLIGNRFVGITGLAFSHQSELLISYNNENIYLFPKNGGLGPDPKSSVKIEAN
KGSKSTIVSSGEDVDRPAPLMYAGHRNCETVKGVTFIGPNHEYVASGSDCGRLFIWRKKDGKFL
RAMEGDECVVNCIEPHPHTMTIASSGIDNDVKIWTPSATERAPVVNIEEDLVMRLQVHRKLNRH
TGCVNTVGFNADGDTLISGSDDQMVMLWDWDTGAIKLQFPSGHSNNVFQARFMPYTNDQTIVTC
AADGEVRLAKIGDGGDVPTTLLGDHDGRAHKLAIEPGSPYIFYSCGEDGLVQHFDLRTNTATKL
FQCRNSLSKSGHSSNIHLNAITIDPRNPNLLAVGGSNCYARVYDIRKYKWDGSSDYPSDCYCPP
HLIGNRFVGITGLAFSHQSELLISYNNENIYLFPKNGGLGPDPKSSVKIEANKGSKSTIVSSGE
DVDRPAPLMYAGHRNCETVKGVTFIGPNHEYVASGSDCGRLFIWRKKDGKFLRAMEGDECVVNC
IEPHPHTMTIASSGIDNDVKIWTPSATERAPVVNIEEDLVMRLQVHRKLNRHTGCVNTVGFNAD
GDTLISGSDDQMVMLWDWDTGAIKLQFPSGHSNNVFQARFMPYTNDQTIVTCAADGEVRLAKIG
DGGDVPTTLLGDHDGRAHKLAIEPGSPYIFYSCGEDGLVQHFDLRTNTATKLFQCRNSLSKSGH
SSNIHLNAITIDPRNPNLLAVGGSNCYARVYDIRKYKWDGSSDYPSDCYCPPHLIGNRFVGITG
LAFSHQSELLISYNNENIYLFPKNGGLGPDPKSSVKIEANKGSKSTIVSSGEDVDRPAPLMYAG
HRNCETVKGVTFIGPNHEYVASGSDCGRLFIWRKKDGKFLRAMEGDECVVNCIEPHPHTMTIAS
SGIDNDVKIWTPSATERAPVVNIEEDLVMRLQVHRKLNRHTGCVNTVGFNADGDTLISGSDDQM
VMLWDWDTGAIKLQFPSGHSNNVFQARFMPYTNDQTIVTCAADGEVRLAKIGDGGDVPTTLLGD
HDGRAHKLAIEPGSPYIFYSCGEDGLVQHFDLRTNTATKLFQCRNSLSKSGHSSNIHLNAITID
PRNPNLLAVGGSNCYARVYDIRKYKWDGSSDYPSDCYCPPHLIGNRFVGITGLAFSHQSELLIS
YNNENIYLFPKNGGLGPDPKSSVKIEANKGSKSTIVSSGEDVDRPAPLMYAGHRNCETVKGVTF
IGPNHEYVASGSDCGRLFIWRKKDGKFLRAMEGDECVVNCIEPHPHTMTIASSGIDNDVKIWTP
SATERAPVVNIEE(+)
MPVELPVNLQAHYKILLNVYHWCSLSGRGSPYLYVIIDSAACNCHSVRMGLNTVYNTFITLHCP
QKLPIFLSPNK*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	21254367-21255665(+) 21254403-21255488(-)
Potential amino acid sequence	MRLQVHRKLNRHTGCVNTVGFNADGDTLISGSDDQMVMLWDWDTGAIKLQFPSGHSNNVFQARF MPYTNDQTIVTCAADGEVRLAKIGDGGDVPTTLLGDHDGRAHKLAIEPGSPYIFYSCGEDGLVQ HFDLRTNTATKLFQCRNSLSKSGHSSNIHLNAITIDPRNPNLLAVGGSNCYARVYDIRKYKWDG SSDYPSDCYCPPHLIGNRFVGITGLAFSHQSELLISYNNENIYLFPKNGGLGPDPKSSVKIEAN KGSKSTIVSSGEDVDRPAPLMYAGHRNCETVKGVTFIGPNHEYVASGSDCGRLFIWRKKDGKFL RAMEGDECVVNCIEPHPHTMTIASSGIDNDVKIWTPSATERAPVVNIEEDLVMRLQVHRKLNRH TGCVNTVGFNADGDTLISGSDDQMVMLWDWDTGAIKLQFPSGHSNNVFQARFMPYTNDQTIVTC AADGEVRLAKIGDGGDVPTTLLGDHDGRAHKLAIEPGSPYIFYSCGEDGLVQHFDLRTNTATKL FQCRNSLSKSGHSSNIHLNAITIDPRNPNLLAVGGSNCYARVYDIRKYKWDGSSDYPSDCYCPP HLIGNRFVGITGLAFSHQSELLISYNNENIYLFPKNGGLGPDPKSSVKIEANKGSKSTIVSSGE DVDRPAPLMYAGHRNCETVKGVTFIGPNHEYVASGSDCGRLFIWRKKDGKFLRAMEGDECVVNC IEPHPHTMTIASSGIDNDVKIWTPSATERAPVVNIEEDLVMRLQVHRKLNRHTGCVNTVGFNAD GDTLISGSDDQMVMLWDWDTGAIKLQFPSGHSNNVFQARFMPYTNDQTIVTCAADGEVRLAKIG DGGDVPTTLLGDHDGRAHKLAIEPGSPYIFYSCGEDGLVQHFDLRTNTATKLFQCRNSLSKSGH SSNIHLNAITIDPRNPNLLAVGGSNCYARVYDIRKYKWDGSSDYPSDCYCPPHLIGNRFVGITG LAFSHQSELLISYNNENIYLFPKNGGLGPDPKSSVKIEANKGSKSTIVSSGEDVDRPAPLMYAG HRNCETVKGVTFIGPNHEYVASGSDCGRLFIWRKKDGKFLRAMEGDECVVNCIEPHPHTMTIAS SGIDNDVKIWTPSATERAPVVNIEEDLVMRLQVHRKLNRHTGCVNTVGFNADGDTLISGSDDQM VMLWDWDTGAIKLQFPSGHSNNVFQARFMPYTNDQTIVTCAADGEVRLAKIGDGGDVPTTLLGD HDGRAHKLAIEPGSPYIFYSCGEDGLVQHFDLRTNTATKLFQCRNSLSKSGHSSNIHLNAITID PRNPNLLAVGGSNCYARVYDIRKYKWDGSSDYPSDCYCPPHLIGNRFVGITGLAFSHQSELLIS YNNENIYLFPKNGGLGPDPKSSVKIEANKGSKSTIVSSGEDVDRPAPLMYAGHRNCETVKGVTF IGPNHEYVASGSDCGRLFIWRKKDGKFLRAMEGDECVVNCIEPHPHTMTIASSGIDNDVKIWTP SATERAPVVNIEE(+) MPVELPVNLQAHYKILLNVYHWCSLSGRGSPYLYVIIDSAACNCHSVRMGLNTVYNTFITLHCP QKLPIFLSPNK*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os10g0544500_circ_g.3

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