Plant Circular RNA Database

Detail information of Os02g0622300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os02g0622300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_015550
					
						Alias
						Os_ciR5276
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 24778221-24779435  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os02g0622300						
					
						Parent gene annotation
						
							Ribosomal protein L14 family protein. (Os02t0622300-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0622350_circ_ag.1 Os02g0622300_circ_g.2 Os02g0622350_circ_g.1 Os02g0622400_circ_g.1 Os02g0622400_circ_g.2 Os02g0623400_circ_ig.1 Os02g0623500_circ_igg.1 Os02g0623500_circ_igg.2 Os02g0623500_circ_g.1 Os02g0623500_circ_g.2 Os02g0623500_circ_g.3 Os02g0623500_circ_g.4 						
					
						Support reads
						3
					
						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
						Os02t0622300-00:3

General Information
CircRNA Name	Os02g0622300_circ_g.1
ID in PlantcircBase	osa_circ_015550
Alias	Os_ciR5276
Organism	Oryza sativa
Position	chr2: 24778221-24779435 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os02g0622300
Parent gene annotation	Ribosomal protein L14 family protein. (Os02t0622300-00)
Parent gene strand	-
Alternative splicing	Os02g0622350_circ_ag.1 Os02g0622300_circ_g.2 Os02g0622350_circ_g.1 Os02g0622400_circ_g.1 Os02g0622400_circ_g.2 Os02g0623400_circ_ig.1 Os02g0623500_circ_igg.1 Os02g0623500_circ_igg.2 Os02g0623500_circ_g.1 Os02g0623500_circ_g.2 Os02g0623500_circ_g.3 Os02g0623500_circ_g.4
Support reads	3
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	Os02t0622300-00:3

			
						 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  
						
							GGTTCTGGTCGACGACATCAACGATGACGACGAGGCGGCCGTAGTCCTTGCCGTAGTTCACCAG
GGCCACCCGCCCGATCTCCACGAACCTCTTGAACGGcttgatcttggccaacataaccttgaac
ctgtcaaagtcattgagtgacgctctcctcttctggacaattagcttcttgccccatgagctat
tctcccac

									
								

					

						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: 345
Transcript exons: 24778221-24778333,24778421-24778550,24779334-24779435
CTTGATCTTGGCCAACATAACCTTGAACCTGTCAAAGTCATTGAGTGACGCTCTCCTCTTCTGG
ACAATTAGCTTCTTGCCCCATGAGCTATTCTCCCACTTGTTCTTAACATCAGCCTCCTCCATAG
CCTTAATCAAAGTTGTCTTCTTCGGGACACGTTTGATGTCAATCTTGATGTCAGTCAGGGAAAG
CCTCTTGAAGTTGATCTGGCACCTGACCATGTCAGGAGCATCCACAAGTGCCCGGTTCTGGTCG
ACGACATCAACGATGACGACGAGGCGGCCGTAGTCCTTGCCGTAGTTCACCAGGGCCACCCGCC
CGATCTCCACGAACCTCTTGAACGG
						
					

						Genomic sequence
						
							CTTGATCTTGGCCAACATAACCTTGAACCTGTCAAAGTCATTGAGTGACGCTCTCCTCTTCTGG
ACAATTAGCTTCTTGCCCCATGAGCTATTCTCCCACTTGTTCTTAACATCTTAAATAGAATAAC
CACCACTCAGATTAGACATGGACAGAAATAAATAACTGCTGATAGGATTGGTAGCACAACATTC
ATACTAACCAGCCTCCTCCATAGCCTTAATCAAAGTTGTCTTCTTCGGGACACGTTTGATGTCA
ATCTTGATGTCAGTCAGGGAAAGCCTCTTGAAGTTGATCTGGCACCTGACCATGTCAGGAGCAT
CCACAAGTGCCTGGTGATTCACAGAAAACAGAGTTATGTGATATCCAATAATCAAAGCACTACA
ATATAATTAACTCCGATTAGAAAAATGAGCAGCGATAACATAATAGTGGCACTAATGCATCCGC
CAATGGAGGCACCATCAACACTATCAATCATAGGTAAACCAAAACCTCATTGTCAATAAATAGT
TCATTATTGTAAATTGCCAAGTAGTCCGAGCTAATGCTGATAAACTTCTAGACTTGACGCACAT
TTTTTCAGATCAAGTACTCCCTCCGTACTCGTAAAGGAAGTCATTTAGGACAGCGACACGGTCT
CCAAAACACAACTTTGACTACTTGTTTCTATAAAAATATTTATTGAAAAGTGATATATGTATAC
TTTTATGAAAATATTTTTCAAGACAAATCTATTCATATAATTTTTACATCTTCAAACTCAACAA
CTTGAGAGTTATTCATGATTTATATTCCCGAGGTTTGACTTAAACATTGTCCTAAACGACTTCC
TTTACGAGTACGGAGGGAGTACACCACAGCAAATGCAGAATATTCTTCCATTTAAGGCTGTGCG
GAAACAGAAGAGACTTGCTACTCTCAAAGGATTCATTTTTGGCGTTCCATTATATTCTACTACG
TTAACAATTCTTACATTTCTCACTAGAAACAAATTACAATAGCAGCAAGAGTTTATCACACCAG
CTAGTACTAGTATAATTTCTATAGATCCAAATTATAAAGCGGGTACAAATGGAAACAGTTCAAG
GCGTACGAGAGAAGACGATGCTTACCCGGTTCTGGTCGACGACATCAACGATGACGACGAGGCG
GCCGTAGTCCTTGCCGTAGTTCACCAGGGCCACCCGCCCGATCTCCACGAACCTCTTGAACGG
						
					

			
		

Sequences
Splice junction sequence	GGTTCTGGTCGACGACATCAACGATGACGACGAGGCGGCCGTAGTCCTTGCCGTAGTTCACCAG GGCCACCCGCCCGATCTCCACGAACCTCTTGAACGGcttgatcttggccaacataaccttgaac ctgtcaaagtcattgagtgacgctctcctcttctggacaattagcttcttgccccatgagctat tctcccac
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: 345 Transcript exons: 24778221-24778333,24778421-24778550,24779334-24779435 CTTGATCTTGGCCAACATAACCTTGAACCTGTCAAAGTCATTGAGTGACGCTCTCCTCTTCTGG ACAATTAGCTTCTTGCCCCATGAGCTATTCTCCCACTTGTTCTTAACATCAGCCTCCTCCATAG CCTTAATCAAAGTTGTCTTCTTCGGGACACGTTTGATGTCAATCTTGATGTCAGTCAGGGAAAG CCTCTTGAAGTTGATCTGGCACCTGACCATGTCAGGAGCATCCACAAGTGCCCGGTTCTGGTCG ACGACATCAACGATGACGACGAGGCGGCCGTAGTCCTTGCCGTAGTTCACCAGGGCCACCCGCC CGATCTCCACGAACCTCTTGAACGG
Genomic sequence	CTTGATCTTGGCCAACATAACCTTGAACCTGTCAAAGTCATTGAGTGACGCTCTCCTCTTCTGG ACAATTAGCTTCTTGCCCCATGAGCTATTCTCCCACTTGTTCTTAACATCTTAAATAGAATAAC CACCACTCAGATTAGACATGGACAGAAATAAATAACTGCTGATAGGATTGGTAGCACAACATTC ATACTAACCAGCCTCCTCCATAGCCTTAATCAAAGTTGTCTTCTTCGGGACACGTTTGATGTCA ATCTTGATGTCAGTCAGGGAAAGCCTCTTGAAGTTGATCTGGCACCTGACCATGTCAGGAGCAT CCACAAGTGCCTGGTGATTCACAGAAAACAGAGTTATGTGATATCCAATAATCAAAGCACTACA ATATAATTAACTCCGATTAGAAAAATGAGCAGCGATAACATAATAGTGGCACTAATGCATCCGC CAATGGAGGCACCATCAACACTATCAATCATAGGTAAACCAAAACCTCATTGTCAATAAATAGT TCATTATTGTAAATTGCCAAGTAGTCCGAGCTAATGCTGATAAACTTCTAGACTTGACGCACAT TTTTTCAGATCAAGTACTCCCTCCGTACTCGTAAAGGAAGTCATTTAGGACAGCGACACGGTCT CCAAAACACAACTTTGACTACTTGTTTCTATAAAAATATTTATTGAAAAGTGATATATGTATAC TTTTATGAAAATATTTTTCAAGACAAATCTATTCATATAATTTTTACATCTTCAAACTCAACAA CTTGAGAGTTATTCATGATTTATATTCCCGAGGTTTGACTTAAACATTGTCCTAAACGACTTCC TTTACGAGTACGGAGGGAGTACACCACAGCAAATGCAGAATATTCTTCCATTTAAGGCTGTGCG GAAACAGAAGAGACTTGCTACTCTCAAAGGATTCATTTTTGGCGTTCCATTATATTCTACTACG TTAACAATTCTTACATTTCTCACTAGAAACAAATTACAATAGCAGCAAGAGTTTATCACACCAG CTAGTACTAGTATAATTTCTATAGATCCAAATTATAAAGCGGGTACAAATGGAAACAGTTCAAG GCGTACGAGAGAAGACGATGCTTACCCGGTTCTGGTCGACGACATCAACGATGACGACGAGGCG GCCGTAGTCCTTGCCGTAGTTCACCAGGGCCACCCGCCCGATCTCCACGAACCTCTTGAACGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.293681173

Conservation Information
Conserved circRNAs	NA
PMCS	0.293681173

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24778531-24778223(-)
24778263-24779395(-)
						
						Potential amino acid sequence
						
							MVRCQINFKRLSLTDIKIDIKRVPKKTTLIKAMEEADVKNKWENSSWGKKLIVQKRRASLNDFD
RFKVMLAKIKPFKRFVEIGRVALVNYGKDYGRLVVIVDVVDQNRALVDAPDMVRCQINFKRLSL
TDIKIDIKRVPKKTTLIKAMEEADVKNKWENSSWGKKLIVQKRRASLNDFDRFKVMLAKIKPFK
RFVEIGRVALVNYGKDYGRLVVIVDVVDQNRALVDAPDMVRCQINFKRLSLTDIKIDIKRVPKK
TTLIKAMEEADVKNKWENSSWGKKLIVQKRRASLNDFDRFKVMLAKIKPFKRFVEIGRVALVNY
GKDYGRLVVIVDVVDQNRALVDAPDMVRCQINFKRLSLTDIKIDIKRVPKKTTLIKAMEEADVK
NKWENSSWGKKLIVQKRRASLNDFDRFKVMLAKIK(-)
MTLTGSRLCWPRSSRSRGSWRSGGWPW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24778531-24778223(-) 24778263-24779395(-)
Potential amino acid sequence	MVRCQINFKRLSLTDIKIDIKRVPKKTTLIKAMEEADVKNKWENSSWGKKLIVQKRRASLNDFD RFKVMLAKIKPFKRFVEIGRVALVNYGKDYGRLVVIVDVVDQNRALVDAPDMVRCQINFKRLSL TDIKIDIKRVPKKTTLIKAMEEADVKNKWENSSWGKKLIVQKRRASLNDFDRFKVMLAKIKPFK RFVEIGRVALVNYGKDYGRLVVIVDVVDQNRALVDAPDMVRCQINFKRLSLTDIKIDIKRVPKK TTLIKAMEEADVKNKWENSSWGKKLIVQKRRASLNDFDRFKVMLAKIKPFKRFVEIGRVALVNY GKDYGRLVVIVDVVDQNRALVDAPDMVRCQINFKRLSLTDIKIDIKRVPKKTTLIKAMEEADVK NKWENSSWGKKLIVQKRRASLNDFDRFKVMLAKIK(-) MTLTGSRLCWPRSSRSRGSWRSGGWPW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os02g0622300_circ_g.1

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