Plant Circular RNA Database

Detail information of Os01g0762400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os01g0762400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_003991
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 32074663-32081921  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0762400						
					
						Parent gene annotation
						
							Similar to Import inner membrane translocase subunit TIM50. (Os0
1t0762400-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os01t0762400-00:7

General Information
CircRNA Name	Os01g0762400_circ_g.1
ID in PlantcircBase	osa_circ_003991
Alias	NA
Organism	Oryza sativa
Position	chr1: 32074663-32081921 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0762400
Parent gene annotation	Similar to Import inner membrane translocase subunit TIM50. (Os0 1t0762400-00)
Parent gene strand	-
Alternative splicing	NA
Support reads	1
Tissues	shoot
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	Os01t0762400-00:7

			
						 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  
						
							TACCATATTACCTCGAAACCGGACAGGTCATCACGGATGGGCTGCTTCGAGTTCTTCCGGAACT
CCCGCGTCCTCTGATCAATTTCATCCAGAGAATAAGattcaagaaagggaataagatcaagcag
ttgagtgtcatcattttcaagcttccaaggtttgatctcaacacaattttcaggctgcaggcat
gattccag

						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: 663
Transcript exons: 32074663-32074819,32079407-32079505,32079588-32079692,32
080468-32080581,32080677-32080738,32081451-32081487,3208
1833-32081921
ATTCAAGAAAGGGAATAAGATCAAGCAGTTGAGTGTCATCATTTTCAAGCTTCCAAGGTTTGAT
CTCAACACAATTTTCAGGCTGCAGGCATGATTCCAGAGCATGCCCACTGATATAAATGACTTGT
GCGGGATTTCTGTTTAGCTTTGATAAATCCCGATAGTGTTTTCCATTTTCATATTTAGTTGCAA
CTCTTGATAACCTGTGCTGAACACAGCCCTTTGGATCCAGTCTTTCAATAACAGGATCAACATA
CATACTCAGCTGATCAGAGTACACAACAATTTCATAGAATTTTCCAAGATGTTCCAAAAAGGCA
TCCACTCCTGGCCTCTTAAAAGTTCTCCATCCTCGCTCACGCTTCCAATCTGAGTATACAAGAG
TCTCATTCAGATCCAGAACTAGGGTGAAGACATGCTGCTCTTGAGGAAGTAGATCCGGAAGAAG
TTTATCTGATGATGGTTCACTAAAGCCCCGAATTTGATCTTCTATTTGGCTCCTGGTATCCAAA
TAGAACTCAATAGCAGCAACAGGAACTTTCATAGCTGCTGAATAAGCCATAGCCTGAAACTTCT
CGAAACCGGACAGGTCATCACGGATGGGCTGCTTCGAGTTCTTCCGGAACTCCCGCGTCCTCTG
ATCAATTTCATCCAGAGAATAAG
						
						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

Sequences
Splice junction sequence	TACCATATTACCTCGAAACCGGACAGGTCATCACGGATGGGCTGCTTCGAGTTCTTCCGGAACT CCCGCGTCCTCTGATCAATTTCATCCAGAGAATAAGattcaagaaagggaataagatcaagcag ttgagtgtcatcattttcaagcttccaaggtttgatctcaacacaattttcaggctgcaggcat gattccag
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: 663 Transcript exons: 32074663-32074819,32079407-32079505,32079588-32079692,32 080468-32080581,32080677-32080738,32081451-32081487,3208 1833-32081921 ATTCAAGAAAGGGAATAAGATCAAGCAGTTGAGTGTCATCATTTTCAAGCTTCCAAGGTTTGAT CTCAACACAATTTTCAGGCTGCAGGCATGATTCCAGAGCATGCCCACTGATATAAATGACTTGT GCGGGATTTCTGTTTAGCTTTGATAAATCCCGATAGTGTTTTCCATTTTCATATTTAGTTGCAA CTCTTGATAACCTGTGCTGAACACAGCCCTTTGGATCCAGTCTTTCAATAACAGGATCAACATA CATACTCAGCTGATCAGAGTACACAACAATTTCATAGAATTTTCCAAGATGTTCCAAAAAGGCA TCCACTCCTGGCCTCTTAAAAGTTCTCCATCCTCGCTCACGCTTCCAATCTGAGTATACAAGAG TCTCATTCAGATCCAGAACTAGGGTGAAGACATGCTGCTCTTGAGGAAGTAGATCCGGAAGAAG TTTATCTGATGATGGTTCACTAAAGCCCCGAATTTGATCTTCTATTTGGCTCCTGGTATCCAAA TAGAACTCAATAGCAGCAACAGGAACTTTCATAGCTGCTGAATAAGCCATAGCCTGAAACTTCT CGAAACCGGACAGGTCATCACGGATGGGCTGCTTCGAGTTCTTCCGGAACTCCCGCGTCCTCTG ATCAATTTCATCCAGAGAATAAG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.198153718

Conservation Information
Conserved circRNAs	NA
PMCS	0.198153718

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32074769-32081456(-)
32081477-32074665(-)
						
						Potential amino acid sequence
						
							MLWNHACSLKIVLRSNLGSLKMMTLNCLILFPFLNLILWMKLIRGRGSSGRTRSSPSVMTCPVS
RSFRLWLIQQL*(-)
MAYSAAMKVPVAAIEFYLDTRSQIEDQIRGFSEPSSDKLLPDLLPQEQHVFTLVLDLNETLVYS
DWKRERGWRTFKRPGVDAFLEHLGKFYEIVVYSDQLSMYVDPVIERLDPKGCVQHRLSRVATKY
ENGKHYRDLSKLNRNPAQVIYISGHALESCLQPENCVEIKPWKLENDDTQLLDLIPFLESYSLD
EIDQRTREFRKNSKQPIRDDLSGFEKFQAMAYSAAMKVPVAAIEFYLDTRSQIEDQIRGFSEPS
SDKLLPDLLPQEQHVFTLVLDLNETLVYSDWKRERGWRTFKRPGVDAFLEHLGKFYEIVVYSDQ
LSMYVDPVIERLDPKGCVQHRLSRVATKYENGKHYRDLSKLNRNPAQVIYISGHALESCLQPEN
CVEIKPWKLENDDTQLLDLIPFLESYSLDEIDQRTREFRKNSKQPIRDDLSGFEKFQAMAYSAA
MKVPVAAIEFYLDTRSQIEDQIRGFSEPSSDKLLPDLLPQEQHVFTLVLDLNETLVYSDWKRER
GWRTFKRPGVDAFLEHLGKFYEIVVYSDQLSMYVDPVIERLDPKGCVQHRLSRVATKYENGKHY
RDLSKLNRNPAQVIYISGHALESCLQPENCVEIKPWKLENDDTQLLDLIPFLESYSLDEIDQRT
REFRKNSKQPIRDDLSGFEKFQAMAYSAAMKVPVAAIEFYLDTRSQIEDQIRGFSEPSSDKLLP
DLLPQEQHVFTLVLDLNETLVYSDWKRERGWRTFKRPGVDAFLEHLGKFYEIVVYSDQLSMYVD
PVIERLDPKGCVQHRLSRVATKYENGKHYRDLSKLNRNPAQVIYISGHALESCLQPENCVEIKP
WKLENDDTQLLDLIPFLE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32074769-32081456(-) 32081477-32074665(-)
Potential amino acid sequence	MLWNHACSLKIVLRSNLGSLKMMTLNCLILFPFLNLILWMKLIRGRGSSGRTRSSPSVMTCPVS RSFRLWLIQQL*(-) MAYSAAMKVPVAAIEFYLDTRSQIEDQIRGFSEPSSDKLLPDLLPQEQHVFTLVLDLNETLVYS DWKRERGWRTFKRPGVDAFLEHLGKFYEIVVYSDQLSMYVDPVIERLDPKGCVQHRLSRVATKY ENGKHYRDLSKLNRNPAQVIYISGHALESCLQPENCVEIKPWKLENDDTQLLDLIPFLESYSLD EIDQRTREFRKNSKQPIRDDLSGFEKFQAMAYSAAMKVPVAAIEFYLDTRSQIEDQIRGFSEPS SDKLLPDLLPQEQHVFTLVLDLNETLVYSDWKRERGWRTFKRPGVDAFLEHLGKFYEIVVYSDQ LSMYVDPVIERLDPKGCVQHRLSRVATKYENGKHYRDLSKLNRNPAQVIYISGHALESCLQPEN CVEIKPWKLENDDTQLLDLIPFLESYSLDEIDQRTREFRKNSKQPIRDDLSGFEKFQAMAYSAA MKVPVAAIEFYLDTRSQIEDQIRGFSEPSSDKLLPDLLPQEQHVFTLVLDLNETLVYSDWKRER GWRTFKRPGVDAFLEHLGKFYEIVVYSDQLSMYVDPVIERLDPKGCVQHRLSRVATKYENGKHY RDLSKLNRNPAQVIYISGHALESCLQPENCVEIKPWKLENDDTQLLDLIPFLESYSLDEIDQRT REFRKNSKQPIRDDLSGFEKFQAMAYSAAMKVPVAAIEFYLDTRSQIEDQIRGFSEPSSDKLLP DLLPQEQHVFTLVLDLNETLVYSDWKRERGWRTFKRPGVDAFLEHLGKFYEIVVYSDQLSMYVD PVIERLDPKGCVQHRLSRVATKYENGKHYRDLSKLNRNPAQVIYISGHALESCLQPENCVEIKP WKLENDDTQLLDLIPFLE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0762400_circ_g.1

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