Plant Circular RNA Database

Detail information of Os06g0609600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os06g0609600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_031338
					
						Alias
						Os_ciR10466
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 24273956-24275212  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os06g0609600						
					
						Parent gene annotation
						
							EF-Hand type domain containing protein. (Os06t0609600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0609600_circ_g.2 Os06g0609600_circ_g.3 						
					
						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
						Os06t0609600-02:3

General Information
CircRNA Name	Os06g0609600_circ_g.1
ID in PlantcircBase	osa_circ_031338
Alias	Os_ciR10466
Organism	Oryza sativa
Position	chr6: 24273956-24275212 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os06g0609600
Parent gene annotation	EF-Hand type domain containing protein. (Os06t0609600-02)
Parent gene strand	-
Alternative splicing	Os06g0609600_circ_g.2 Os06g0609600_circ_g.3
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	Os06t0609600-02:3

			
						 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  
						
							GAGAGCTCCTCTTCATGGTGTCATGGCGTCCAAGGATGCCACCCATGCTGGCACTTCACTCGGC
TGTCCTAGCTGGACAAGCACCAAACAACAGTTGTACcaaatcttttcatggctatacgcccaga
agagcgttcccctgttgcagtctcattcattgattgaaccatctcttccttactgacatatcca
tctttgtt

									
								

					

						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: 625
Transcript exons: 24273956-24274130,24274382-24274581,24274963-24275212
CAAATCTTTTCATGGCTATACGCCCAGAAGAGCGTTCCCCTGTTGCAGTCTCATTCATTGATTG
AACCATCTCTTCCTTACTGACATATCCATCTTTGTTCTTATCCAAAAAAACAAATGCATCAACC
AAGGTCTCAAAAGTTGCCTCAAGATTTCCTAATCCCATCTTAATCTTTGCTTCTGACACAGCTG
GTTCGTTGAGCAGATAAATGAGGCACAGAAAGACGATGAACTCATTGAACTTCATGCCCATGTC
TTCATTTATATCACAAGCTTCAAAGAGGTCATTTATCTCCTCCTCTGTGAATGAAATTTCCAAC
TTTTGGAAACAATGCTTCAATTCTTGTTTATCTATTTCGCCATTGGAATCTTCATCGAATTGCT
CGAAGATGATCTTGCATTTCCTCAAGCTCTCATCGATTTTCGGAAACTTCATGATGATGCTATC
GAACGACTTGAGTGAAGTCCCGTGCGACGCTCTCTGCTGCATGGACTCCACCATCTTCGTCTCG
AGCTTCGAGCCGTGAGAGCTCCTCTTCATGGTGTCATGGCGTCCAAGGATGCCACCCATGCTGG
CACTTCACTCGGCTGTCCTAGCTGGACAAGCACCAAACAACAGTTGTAC
						
					

						Genomic sequence
						
							CAAATCTTTTCATGGCTATACGCCCAGAAGAGCGTTCCCCTGTTGCAGTCTCATTCATTGATTG
AACCATCTCTTCCTTACTGACATATCCATCTTTGTTCTTATCCAAAAAAACAAATGCATCAACC
AAGGTCTCAAAAGTTGCCTCAAGATTTCCTAATCCCATCTTAATCTTCTGTGCATTATGTCAAG
GAAACAGAGAAGCTCCTGGCAGAAATGAGTTAAGACAGATCTAAAATAGGATACAGGTACAGAA
AGTTACTAAGTATCCTATCCATCTAATAAACATTACTCCAATCAGATTTACATCGTAATGAAAG
ATTGAAGAAAATAGAACAGTAAATAGTAATGTATCATTTTTGCAATACCTAACCTATATGCTAA
CCCAACATTGCTCTGCAGCAATGCTTATTAAGAAAAGGATACTGCTTCTGACACAGCTGGTTCG
TTGAGCAGATAAATGAGGCACAGAAAGACGATGAACTCATTGAACTTCATGCCCATGTCTTCAT
TTATATCACAAGCTTCAAAGAGGTCATTTATCTCCTCCTCTGTGAATGAAATTTCCAACTTTTG
GAAACAATGCTTCAATTCTTGTTTATCTATTTCGCCATTGGAATCTTCATCTGAGGAGCAAAAA
AGGTTGTTTTTGATATATGAGTGAGAAGCTGTTTGTTTGCACAAATCAGTAAATATTTGAAAGA
CGACATAACCATTTATATAATACAACTCATGCTGATAATGTATCATTATTGAAATTCAACAGTC
CATGACAAGAACCTTATGAAACAACAACAACAACACTACATATTTATTTCTGGTAAGGATTTCA
TTGTGTACAGGAAAATAGAATATATCGGTCCGACAGTCCCTATGTTTTCCTTTCAAACTATTTC
ACCATTGTATAGAAGATCTCTACTGAATCTCACTAGCAGTGAGATCCAAAAGTAGGAGATAATC
AGGTAATTAGACAATGATTGGCATGCAGACAGCATGACGAATCTCACCGAATTGCTCGAAGATG
ATCTTGCATTTCCTCAAGCTCTCATCGATTTTCGGAAACTTCATGATGATGCTATCGAACGACT
TGAGTGAAGTCCCGTGCGACGCTCTCTGCTGCATGGACTCCACCATCTTCGTCTCGAGCTTCGA
GCCGTGAGAGCTCCTCTTCATGGTGTCATGGCGTCCAAGGATGCCACCCATGCTGGCACTTCAC
TCGGCTGTCCTAGCTGGACAAGCACCAAACAACAGTTGTAC
						
					

			
		

Sequences
Splice junction sequence	GAGAGCTCCTCTTCATGGTGTCATGGCGTCCAAGGATGCCACCCATGCTGGCACTTCACTCGGC TGTCCTAGCTGGACAAGCACCAAACAACAGTTGTACcaaatcttttcatggctatacgcccaga agagcgttcccctgttgcagtctcattcattgattgaaccatctcttccttactgacatatcca tctttgtt
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: 625 Transcript exons: 24273956-24274130,24274382-24274581,24274963-24275212 CAAATCTTTTCATGGCTATACGCCCAGAAGAGCGTTCCCCTGTTGCAGTCTCATTCATTGATTG AACCATCTCTTCCTTACTGACATATCCATCTTTGTTCTTATCCAAAAAAACAAATGCATCAACC AAGGTCTCAAAAGTTGCCTCAAGATTTCCTAATCCCATCTTAATCTTTGCTTCTGACACAGCTG GTTCGTTGAGCAGATAAATGAGGCACAGAAAGACGATGAACTCATTGAACTTCATGCCCATGTC TTCATTTATATCACAAGCTTCAAAGAGGTCATTTATCTCCTCCTCTGTGAATGAAATTTCCAAC TTTTGGAAACAATGCTTCAATTCTTGTTTATCTATTTCGCCATTGGAATCTTCATCGAATTGCT CGAAGATGATCTTGCATTTCCTCAAGCTCTCATCGATTTTCGGAAACTTCATGATGATGCTATC GAACGACTTGAGTGAAGTCCCGTGCGACGCTCTCTGCTGCATGGACTCCACCATCTTCGTCTCG AGCTTCGAGCCGTGAGAGCTCCTCTTCATGGTGTCATGGCGTCCAAGGATGCCACCCATGCTGG CACTTCACTCGGCTGTCCTAGCTGGACAAGCACCAAACAACAGTTGTAC
Genomic sequence	CAAATCTTTTCATGGCTATACGCCCAGAAGAGCGTTCCCCTGTTGCAGTCTCATTCATTGATTG AACCATCTCTTCCTTACTGACATATCCATCTTTGTTCTTATCCAAAAAAACAAATGCATCAACC AAGGTCTCAAAAGTTGCCTCAAGATTTCCTAATCCCATCTTAATCTTCTGTGCATTATGTCAAG GAAACAGAGAAGCTCCTGGCAGAAATGAGTTAAGACAGATCTAAAATAGGATACAGGTACAGAA AGTTACTAAGTATCCTATCCATCTAATAAACATTACTCCAATCAGATTTACATCGTAATGAAAG ATTGAAGAAAATAGAACAGTAAATAGTAATGTATCATTTTTGCAATACCTAACCTATATGCTAA CCCAACATTGCTCTGCAGCAATGCTTATTAAGAAAAGGATACTGCTTCTGACACAGCTGGTTCG TTGAGCAGATAAATGAGGCACAGAAAGACGATGAACTCATTGAACTTCATGCCCATGTCTTCAT TTATATCACAAGCTTCAAAGAGGTCATTTATCTCCTCCTCTGTGAATGAAATTTCCAACTTTTG GAAACAATGCTTCAATTCTTGTTTATCTATTTCGCCATTGGAATCTTCATCTGAGGAGCAAAAA AGGTTGTTTTTGATATATGAGTGAGAAGCTGTTTGTTTGCACAAATCAGTAAATATTTGAAAGA CGACATAACCATTTATATAATACAACTCATGCTGATAATGTATCATTATTGAAATTCAACAGTC CATGACAAGAACCTTATGAAACAACAACAACAACACTACATATTTATTTCTGGTAAGGATTTCA TTGTGTACAGGAAAATAGAATATATCGGTCCGACAGTCCCTATGTTTTCCTTTCAAACTATTTC ACCATTGTATAGAAGATCTCTACTGAATCTCACTAGCAGTGAGATCCAAAAGTAGGAGATAATC AGGTAATTAGACAATGATTGGCATGCAGACAGCATGACGAATCTCACCGAATTGCTCGAAGATG ATCTTGCATTTCCTCAAGCTCTCATCGATTTTCGGAAACTTCATGATGATGCTATCGAACGACT TGAGTGAAGTCCCGTGCGACGCTCTCTGCTGCATGGACTCCACCATCTTCGTCTCGAGCTTCGA GCCGTGAGAGCTCCTCTTCATGGTGTCATGGCGTCCAAGGATGCCACCCATGCTGGCACTTCAC TCGGCTGTCCTAGCTGGACAAGCACCAAACAACAGTTGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006829* 						
					
						PMCS
						0.249254243

Conservation Information
Conserved circRNAs	osi_circ_006829*
PMCS	0.249254243

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24275136-24274036(+)
24275128-24274013(+)
24275160-24275183(-)
						
						Potential amino acid sequence
						
							MASKDATHAGTSLGCPSWTSTKQQLYQIFSWLYAQKSVPLLQSHSLIEPSLPY*(+)
MVSWRPRMPPMLALHSAVLAGQAPNNSCTKSFHGYTPRRAFPCCSLIH*(+)
MGGILGRHDTMKRSSHGSKLETKMVESMQQRASHGTSLKSFDSIIMKFPKIDESLRKCKIIFEQ
FDEDSNGEIDKQELKHCFQKLEISFTEEEINDLFEACDINEDMGMKFNEFIVFLCLIYLLNEPA
VSEAKIKMGLGNLEATFETLVDAFVFLDKNKDGYVSKEEMVQSMNETATGERSSGRIAMKRFGT
TVVWCLSS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24275136-24274036(+) 24275128-24274013(+) 24275160-24275183(-)
Potential amino acid sequence	MASKDATHAGTSLGCPSWTSTKQQLYQIFSWLYAQKSVPLLQSHSLIEPSLPY(+) MVSWRPRMPPMLALHSAVLAGQAPNNSCTKSFHGYTPRRAFPCCSLIH(+) MGGILGRHDTMKRSSHGSKLETKMVESMQQRASHGTSLKSFDSIIMKFPKIDESLRKCKIIFEQ FDEDSNGEIDKQELKHCFQKLEISFTEEEINDLFEACDINEDMGMKFNEFIVFLCLIYLLNEPA VSEAKIKMGLGNLEATFETLVDAFVFLDKNKDGYVSKEEMVQSMNETATGERSSGRIAMKRFGT TVVWCLSS*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os06g0609600_circ_g.1

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