Plant Circular RNA Database

Detail information of Os10g0104500_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os10g0104500_circ_g.2
					
						ID in PlantcircBase
						osa_circ_006093
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 355147-357084  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os10g0104500						
					
						Parent gene annotation
						
							Similar to Notchless-related. (Os10t0104500-01);Hypothetical con
served gene. (Os10t0104500-02)
							
						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
						Os10t0104500-02:2
Os10t0104500-01:5

General Information
CircRNA Name	Os10g0104500_circ_g.2
ID in PlantcircBase	osa_circ_006093
Alias	NA
Organism	Oryza sativa
Position	chr10: 355147-357084 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os10g0104500
Parent gene annotation	Similar to Notchless-related. (Os10t0104500-01);Hypothetical con served gene. (Os10t0104500-02)
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	Os10t0104500-02:2 Os10t0104500-01:5

			
						 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  
						
							TTGTGAGTGGAGTCTCACCATTCTTTTGCTGCATGTAAGCACCAAGCTGGACAGAGAGTTCTTC
ATCTCCGATGTAGAATGCATATGGCAGCTTGTCCTCccagtgtaaatcaaaccatctccacccc
acttcacacaagtcactgaattagtgtgacctgtaagggcaatgacacacttccttgtggtcat
atcccaaa

									
								

					

						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: 626
Transcript exons: 355147-355346,355646-355773,356436-356561,356796-356885,
357003-357084
CCAGTGTAAATCAAACCATCTCCACCCCACTTCACACAAGTCACTGAATTAGTGTGACCTGTAA
GGGCAATGACACACTTCCTTGTGGTCATATCCCAAATACGTGCATCACCATCCTTACTTGTACT
TACAAAACGGCGGCAAGGAGATTGCAAATGAACTGGCTCCCAAGATACAGCAGTAATCCACTTC
CTATGCCCCGTAAGTGGAGTCCCCAATTGCTTGCCTGTTTTCGGGTCCCATAATATAAGTTCCC
CTGACTTGCTTCCACTAACAAGATGATTCCCATCAGGCGACCATGCAATGCAGAGGACCCAGTT
TTTGTGTCCTTTGCATGTGAACAATGGGGTCTGTGTGCTCAGATCCCAAAACCTAACAGTGGTA
TCACCAGAACCACTAGCCAAACATCTTCCATCAGGACTGAAGGAAACTGCTAGTACAGCTTCTG
TATGGCCAGCAATTGTAGCAGAGCATCGGTTGACTGGCCTGATACGGAAAATTGCCTGCGGTTG
ATATACTATGCGCAGGGTAACCTCAACATTTGCATTCTTTTGCTGCATGTAAGCACCAAGCTGG
ACAGAGAGTTCTTCATCTCCGATGTAGAATGCATATGGCAGCTTGTCCTC
						
					

						Genomic sequence
						
							CCAGTGTAAATCAAACCATCTCCACCCCACTTCACACAAGTCACTGAATTAGTGTGACCTGTAA
GGGCAATGACACACTTCCTTGTGGTCATATCCCAAATACGTGCATCACCATCCTTACTTGTACT
TACAAAACGGCGGCAAGGAGATTGCAAATGAACTGGCTCCCAAGATACAGCAGTAATCCACTTC
CTATGCCCCTAATGAGTAAAGGCAATGATCAATGAGTACTGCATGGCAAGAAAAAAGAAACTTC
TGCAATATATAAAGTACAACTCCATATACTATTTCCAACATTAAGTGTATGTGAATCCATGGTA
CTAAGAAAAAAGAACTGGAGCAGTTATCTTCAAGTCAACTAAGTAACTAACATATATTTTCCAG
GTTCACATGAATTGACACATAGGGCAGTTAGGTCTGCAAATATGCAACTGAATAATTCTTATTT
CATACTTCTACAAAAACTACAGGTTGAAAGACAAAGATGTCATAATCTTACCGTAAGTGGAGTC
CCCAATTGCTTGCCTGTTTTCGGGTCCCATAATATAAGTTCCCCTGACTTGCTTCCACTAACAA
GATGATTCCCATCAGGCGACCATGCAATGCAGAGGACCCAGTTTTTGTGTCCTGGAAGATGCGG
TGTTATTTGATAACTTTCAAATATTAATGGTATCACCCTCAAAAACATTGGATATACCGATATG
CAAATGGAACTGTCAACGAGACTAAGAGTACCAAAAAATTATACTCAAATGCACTGGAAGTAAT
GTCTGATAAACATGAGTTTTATCACAATGTTACAACAGTAAACTCCTATTAGGTCGTCTGAACA
TCCAATATCGACAAATAAACAATTTATGTAATGTGTTAATTACAAGTAATAAATTATGTTATCT
TTTAATAGTCTCAACCTACTAAATTCATCTAAAAGGAACAAACACTGTATACTATGGTATCAAA
CATTAAGCTTTGATTATCCAGTACATGTTAAGGTTAGGTCTACCATTAAAAAAGATTAATTCTG
AAAGTAACTTACAGGTCTATTGTGAGTTAGGACATATTGATAAAGATAAGCACTGAGTTGCTAA
ACACTTTTGCATCAATCATCTAAGATCTCTCTCATGAGAAATTGTTAATCAAGTGTTGGTAAGC
ACTAGGTTACCGTAAAGAACAATAACCATGGTGTAACTCTATAAAACAAGCACCAATGCAATTA
CGGGCATTCGACTTATTTAAGGTATGAGAAAAATGACTTGAAATTATCTGTATGCAAGAATGCT
AAGATTCACCTTTGCATGTGAACAATGGGGTCTGTGTGCTCAGATCCCAAAACCTAACAGTGGT
ATCACCAGAACCACTAGCCAAACATCTTCCATCAGGACTGAAGGAAACTGCTAGTACAGCTTCT
GTATGGCCTGCAGATGATAAATTACATCATTCGCAGTGGTATAAGAAAGCTCAAAATCGACATA
ATTGAGGCTGGTACTGGTGCTGTCAATGACAAATAAAACAAGGATGCAAAGGGTTTGTCTGTCC
GATGATATTCCCATTGTAATCCCAGCAATATGAGAACATGTCAAATAAAAGAGTCCTAAAATTG
TAATGGAAAAAGAAAACAATGAAATGAACGTAATCCAAGGTATACATACCAGCAATTGTAGCAG
AGCATCGGTTGACTGGCCTGATACGGAAAATTGCCTGCGGTTGATATACTATGCGCAGGGTAAC
CTCAACATTTGCTTCATTTAACAAAAATCAAAAGATAGAAATCAGAAATGAGATGCAACACCTA
GTTTGTTTTAATTTTCTTAATCGACGAAAAGAAATGTAGGATGAACTTGTGAGTGGAGTCTCAC
CATTCTTTTGCTGCATGTAAGCACCAAGCTGGACAGAGAGTTCTTCATCTCCGATGTAGAATGC
ATATGGCAGCTTGTCCTC
						
					

			
		

Sequences
Splice junction sequence	TTGTGAGTGGAGTCTCACCATTCTTTTGCTGCATGTAAGCACCAAGCTGGACAGAGAGTTCTTC ATCTCCGATGTAGAATGCATATGGCAGCTTGTCCTCccagtgtaaatcaaaccatctccacccc acttcacacaagtcactgaattagtgtgacctgtaagggcaatgacacacttccttgtggtcat atcccaaa
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: 626 Transcript exons: 355147-355346,355646-355773,356436-356561,356796-356885, 357003-357084 CCAGTGTAAATCAAACCATCTCCACCCCACTTCACACAAGTCACTGAATTAGTGTGACCTGTAA GGGCAATGACACACTTCCTTGTGGTCATATCCCAAATACGTGCATCACCATCCTTACTTGTACT TACAAAACGGCGGCAAGGAGATTGCAAATGAACTGGCTCCCAAGATACAGCAGTAATCCACTTC CTATGCCCCGTAAGTGGAGTCCCCAATTGCTTGCCTGTTTTCGGGTCCCATAATATAAGTTCCC CTGACTTGCTTCCACTAACAAGATGATTCCCATCAGGCGACCATGCAATGCAGAGGACCCAGTT TTTGTGTCCTTTGCATGTGAACAATGGGGTCTGTGTGCTCAGATCCCAAAACCTAACAGTGGTA TCACCAGAACCACTAGCCAAACATCTTCCATCAGGACTGAAGGAAACTGCTAGTACAGCTTCTG TATGGCCAGCAATTGTAGCAGAGCATCGGTTGACTGGCCTGATACGGAAAATTGCCTGCGGTTG ATATACTATGCGCAGGGTAACCTCAACATTTGCATTCTTTTGCTGCATGTAAGCACCAAGCTGG ACAGAGAGTTCTTCATCTCCGATGTAGAATGCATATGGCAGCTTGTCCTC
Genomic sequence	CCAGTGTAAATCAAACCATCTCCACCCCACTTCACACAAGTCACTGAATTAGTGTGACCTGTAA GGGCAATGACACACTTCCTTGTGGTCATATCCCAAATACGTGCATCACCATCCTTACTTGTACT TACAAAACGGCGGCAAGGAGATTGCAAATGAACTGGCTCCCAAGATACAGCAGTAATCCACTTC CTATGCCCCTAATGAGTAAAGGCAATGATCAATGAGTACTGCATGGCAAGAAAAAAGAAACTTC TGCAATATATAAAGTACAACTCCATATACTATTTCCAACATTAAGTGTATGTGAATCCATGGTA CTAAGAAAAAAGAACTGGAGCAGTTATCTTCAAGTCAACTAAGTAACTAACATATATTTTCCAG GTTCACATGAATTGACACATAGGGCAGTTAGGTCTGCAAATATGCAACTGAATAATTCTTATTT CATACTTCTACAAAAACTACAGGTTGAAAGACAAAGATGTCATAATCTTACCGTAAGTGGAGTC CCCAATTGCTTGCCTGTTTTCGGGTCCCATAATATAAGTTCCCCTGACTTGCTTCCACTAACAA GATGATTCCCATCAGGCGACCATGCAATGCAGAGGACCCAGTTTTTGTGTCCTGGAAGATGCGG TGTTATTTGATAACTTTCAAATATTAATGGTATCACCCTCAAAAACATTGGATATACCGATATG CAAATGGAACTGTCAACGAGACTAAGAGTACCAAAAAATTATACTCAAATGCACTGGAAGTAAT GTCTGATAAACATGAGTTTTATCACAATGTTACAACAGTAAACTCCTATTAGGTCGTCTGAACA TCCAATATCGACAAATAAACAATTTATGTAATGTGTTAATTACAAGTAATAAATTATGTTATCT TTTAATAGTCTCAACCTACTAAATTCATCTAAAAGGAACAAACACTGTATACTATGGTATCAAA CATTAAGCTTTGATTATCCAGTACATGTTAAGGTTAGGTCTACCATTAAAAAAGATTAATTCTG AAAGTAACTTACAGGTCTATTGTGAGTTAGGACATATTGATAAAGATAAGCACTGAGTTGCTAA ACACTTTTGCATCAATCATCTAAGATCTCTCTCATGAGAAATTGTTAATCAAGTGTTGGTAAGC ACTAGGTTACCGTAAAGAACAATAACCATGGTGTAACTCTATAAAACAAGCACCAATGCAATTA CGGGCATTCGACTTATTTAAGGTATGAGAAAAATGACTTGAAATTATCTGTATGCAAGAATGCT AAGATTCACCTTTGCATGTGAACAATGGGGTCTGTGTGCTCAGATCCCAAAACCTAACAGTGGT ATCACCAGAACCACTAGCCAAACATCTTCCATCAGGACTGAAGGAAACTGCTAGTACAGCTTCT GTATGGCCTGCAGATGATAAATTACATCATTCGCAGTGGTATAAGAAAGCTCAAAATCGACATA ATTGAGGCTGGTACTGGTGCTGTCAATGACAAATAAAACAAGGATGCAAAGGGTTTGTCTGTCC GATGATATTCCCATTGTAATCCCAGCAATATGAGAACATGTCAAATAAAAGAGTCCTAAAATTG TAATGGAAAAAGAAAACAATGAAATGAACGTAATCCAAGGTATACATACCAGCAATTGTAGCAG AGCATCGGTTGACTGGCCTGATACGGAAAATTGCCTGCGGTTGATATACTATGCGCAGGGTAAC CTCAACATTTGCTTCATTTAACAAAAATCAAAAGATAGAAATCAGAAATGAGATGCAACACCTA GTTTGTTTTAATTTTCTTAATCGACGAAAAGAAATGTAGGATGAACTTGTGAGTGGAGTCTCAC CATTCTTTTGCTGCATGTAAGCACCAAGCTGGACAGAGAGTTCTTCATCTCCGATGTAGAATGC ATATGGCAGCTTGTCCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.231611077

Conservation Information
Conserved circRNAs	NA
PMCS	0.231611077

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							357064-355190(+)
356558-355152(+)
357020-356861(-)
						
						Potential amino acid sequence
						
							MHMAACPPSVNQTISTPLHTSH*(+)
MASNCSRASVDWPDTENCLRLIYYAQGNLNICILLLHVSTKLDREFFISDVECIWQLVLPV*(+
)
MQQKNANVEVTLRIVYQPQAIFRIRPVNRCSATIAGHTEAVLAVSFSPDGRCLASGSGDTTVRF
WDLSTQTPLFTCKGHKNWVLCIAWSPDGNHLVSGSKSGELILWDPKTGKQLGTPLTGHRKWITA
VSWEPVHLQSPCRRFVSTSKDGDARIWDMTTRKCVIALTGHTNSVTCVKWGGDGLIYTGRTSCH
MHSTSEMKNSLSSLVLTCSKRMQMLRLPCA*(-)
						
						Sponge-miRNAs
						
							osa-miR5837.1 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	357064-355190(+) 356558-355152(+) 357020-356861(-)
Potential amino acid sequence	MHMAACPPSVNQTISTPLHTSH(+) MASNCSRASVDWPDTENCLRLIYYAQGNLNICILLLHVSTKLDREFFISDVECIWQLVLPV(+ ) MQQKNANVEVTLRIVYQPQAIFRIRPVNRCSATIAGHTEAVLAVSFSPDGRCLASGSGDTTVRF WDLSTQTPLFTCKGHKNWVLCIAWSPDGNHLVSGSKSGELILWDPKTGKQLGTPLTGHRKWITA VSWEPVHLQSPCRRFVSTSKDGDARIWDMTTRKCVIALTGHTNSVTCVKWGGDGLIYTGRTSCH MHSTSEMKNSLSSLVLTCSKRMQMLRLPCA*(-)
Sponge-miRNAs	osa-miR5837.1
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os10g0104500_circ_g.2

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