Plant Circular RNA Database

Detail information of Os01g0896700_circ_ag.3

			
						 General Information
					
						CircRNA Name
						Os01g0896700_circ_ag.3
					
						ID in PlantcircBase
						osa_circ_005217
					
						Alias
						Os01circ30246/Os_ciR758
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 38969853-38975080  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os01g0896700_circ_ag.1 Os01g0896700_circ_ag.2 Os01g0896700_circ_ag.3 Os01g0896700_circ_g.1 Os01g0896700_circ_ag.2 Os01g0896700_circ_ag.4 Os01g0896700_circ_ag.5 Os01g0896700_circ_ag.6 Os01g0896700_circ_ag.7 Os01g0896800_circ_g.1 						
					
						Support reads
						2/1531
					
						Tissues
						panicle/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
						NA

General Information
CircRNA Name	Os01g0896700_circ_ag.3
ID in PlantcircBase	osa_circ_005217
Alias	Os01circ30246/Os_ciR758
Organism	Oryza sativa
Position	chr1: 38969853-38975080 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ag-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os01g0896700_circ_ag.1 Os01g0896700_circ_ag.2 Os01g0896700_circ_ag.3 Os01g0896700_circ_g.1 Os01g0896700_circ_ag.2 Os01g0896700_circ_ag.4 Os01g0896700_circ_ag.5 Os01g0896700_circ_ag.6 Os01g0896700_circ_ag.7 Os01g0896800_circ_g.1
Support reads	2/1531
Tissues	panicle/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	NA

			
						 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  
						
							TGTTTTGATGCATTGTGTAGCTTATTGCACTGGCTTGCTTTTGGCTCGCCGTGTGCTCAAGCTC
CGTGGTTTGGACCAGGAGTACGAGGGCAATATTGAGgccactggggaggactactatgttgaac
cagctgatgaaaggaggcctttccgtgctctcttggatgttggcctcattaggacaaccactgg
aaaccgtg

									
								

					

						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: 885
Transcript exons: 38969853-38969970,38970453-38970627,38970708-38970942,38
973670-38973743,38974425-38974498,38974782-38974909,3897
5000-38975080
GCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGG
ATGTTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGGAGTCTATGGC
TGAGGAGGAACCTGAGAAATTCCAAGCCCACTTTAGTGAGTACCTCAAGAAGGGAATTGACGCT
GATGGCATGGAATCACTGTACAAGAAGGTCCATGCTGCCATCCGCGCCGATCCTACCATGGCCA
AATCGACCAAGAAGGAACCGGCTACCCACAAGAGGTACAGATACAACCTCAAGAAGCTGACCTA
CGAGCAGAGGAAGGCCAGTCTCGTCGAAAGATTGAATGCTCTCAACTCCTCCGCTGGTGCTGAT
GATGATGACGAGGAAGAGGATGACGAGTGAGAGAGTAGCCTTATCACAGTAGTTTCATCTTATG
CTGCCAAACAAACTCCATATGGCATTTAAGTTTACCTGTAGTCTTGCAATTTGCAACAGGCATT
TTTGTTTATGTTCTGCCCTCTCCCCTCTCCTCGCTCCTCCACGCGCCGCCGCCGCCGCAGCGGA
GCAGCCACAGCAGGCGAGCGACATGGGGGAGGGTTTGTCAAGACCCAGAAGACCAATGCCTACC
ACAAGCGTTTCCAAGTCAAGTTCAAGAGACGGAGGCGACAAACAAAGATATCACAGCTCAAATT
GTCTATGCTACCATTGCTGGTGATATCGTGATGGCTGCTGCCTACTCCCATGAGCTGCCTCGCT
ATGGTCTTGAAGTTGGTCTCACCAACTATGCGGCAGGCTTATTGCACTGGCTTGCTTTTGGCTC
GCCGTGTGCTCAAGCTCCGTGGTTTGGACCAGGAGTACGAGGGCAATATTGAG
Transcript length: 901
Transcript exons: 38969853-38969971,38970453-38970627,38970708-38970942,38
973657-38973743,38974425-38974498,38974782-38974909,3897
4998-38975080
GCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGG
ATGTTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGGTAGTCTATGG
CTGAGGAGGAACCTGAGAAATTCCAAGCCCACTTTAGTGAGTACCTCAAGAAGGGAATTGACGC
TGATGGCATGGAATCACTGTACAAGAAGGTCCATGCTGCCATCCGCGCCGATCCTACCATGGCC
AAATCGACCAAGAAGGAACCGGCTACCCACAAGAGGTACAGATACAACCTCAAGAAGCTGACCT
ACGAGCAGAGGAAGGCCAGTCTCGTCGAAAGATTGAATGCTCTCAACTCCTCCGCTGGTGCTGA
TGATGATGACGAGGAAGAGGATGACGAGTGAGAGAGTAGCCTTATCACAGTAGTTTCATCTTAT
GCTGCCAAACAAACTCCATATGGCATTTAAGTTTACCTGTAGTCTTGCAATTTGCAACAGGCAT
TTTTGTTTATGTTCTGCATTCCTTCTCCCACCTCTCCCCTCTCCTCGCTCCTCCACGCGCCGCC
GCCGCCGCAGCGGAGCAGCCACAGCAGGCGAGCGACATGGGGGAGGGTTTGTCAAGACCCAGAA
GACCAATGCCTACCACAAGCGTTTCCAAGTCAAGTTCAAGAGACGGAGGCGACAAACAAAGATA
TCACAGCTCAAATTGTCTATGCTACCATTGCTGGTGATATCGTGATGGCTGCTGCCTACTCCCA
TGAGCTGCCTCGCTATGGTCTTGAAGTTGGTCTCACCAACTATGCGGCAGTAGCTTATTGCACT
GGCTTGCTTTTGGCTCGCCGTGTGCTCAAGCTCCGTGGTTTGGACCAGGAGTACGAGGGCAATA
TTGAG
						
					

						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	TGTTTTGATGCATTGTGTAGCTTATTGCACTGGCTTGCTTTTGGCTCGCCGTGTGCTCAAGCTC CGTGGTTTGGACCAGGAGTACGAGGGCAATATTGAGgccactggggaggactactatgttgaac cagctgatgaaaggaggcctttccgtgctctcttggatgttggcctcattaggacaaccactgg aaaccgtg
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: 885 Transcript exons: 38969853-38969970,38970453-38970627,38970708-38970942,38 973670-38973743,38974425-38974498,38974782-38974909,3897 5000-38975080 GCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGG ATGTTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGGAGTCTATGGC TGAGGAGGAACCTGAGAAATTCCAAGCCCACTTTAGTGAGTACCTCAAGAAGGGAATTGACGCT GATGGCATGGAATCACTGTACAAGAAGGTCCATGCTGCCATCCGCGCCGATCCTACCATGGCCA AATCGACCAAGAAGGAACCGGCTACCCACAAGAGGTACAGATACAACCTCAAGAAGCTGACCTA CGAGCAGAGGAAGGCCAGTCTCGTCGAAAGATTGAATGCTCTCAACTCCTCCGCTGGTGCTGAT GATGATGACGAGGAAGAGGATGACGAGTGAGAGAGTAGCCTTATCACAGTAGTTTCATCTTATG CTGCCAAACAAACTCCATATGGCATTTAAGTTTACCTGTAGTCTTGCAATTTGCAACAGGCATT TTTGTTTATGTTCTGCCCTCTCCCCTCTCCTCGCTCCTCCACGCGCCGCCGCCGCCGCAGCGGA GCAGCCACAGCAGGCGAGCGACATGGGGGAGGGTTTGTCAAGACCCAGAAGACCAATGCCTACC ACAAGCGTTTCCAAGTCAAGTTCAAGAGACGGAGGCGACAAACAAAGATATCACAGCTCAAATT GTCTATGCTACCATTGCTGGTGATATCGTGATGGCTGCTGCCTACTCCCATGAGCTGCCTCGCT ATGGTCTTGAAGTTGGTCTCACCAACTATGCGGCAGGCTTATTGCACTGGCTTGCTTTTGGCTC GCCGTGTGCTCAAGCTCCGTGGTTTGGACCAGGAGTACGAGGGCAATATTGAG Transcript length: 901 Transcript exons: 38969853-38969971,38970453-38970627,38970708-38970942,38 973657-38973743,38974425-38974498,38974782-38974909,3897 4998-38975080 GCCACTGGGGAGGACTACTATGTTGAACCAGCTGATGAAAGGAGGCCTTTCCGTGCTCTCTTGG ATGTTGGCCTCATTAGGACAACCACTGGAAACCGTGTCTTTGGTGCCCTCAAGGTAGTCTATGG CTGAGGAGGAACCTGAGAAATTCCAAGCCCACTTTAGTGAGTACCTCAAGAAGGGAATTGACGC TGATGGCATGGAATCACTGTACAAGAAGGTCCATGCTGCCATCCGCGCCGATCCTACCATGGCC AAATCGACCAAGAAGGAACCGGCTACCCACAAGAGGTACAGATACAACCTCAAGAAGCTGACCT ACGAGCAGAGGAAGGCCAGTCTCGTCGAAAGATTGAATGCTCTCAACTCCTCCGCTGGTGCTGA TGATGATGACGAGGAAGAGGATGACGAGTGAGAGAGTAGCCTTATCACAGTAGTTTCATCTTAT GCTGCCAAACAAACTCCATATGGCATTTAAGTTTACCTGTAGTCTTGCAATTTGCAACAGGCAT TTTTGTTTATGTTCTGCATTCCTTCTCCCACCTCTCCCCTCTCCTCGCTCCTCCACGCGCCGCC GCCGCCGCAGCGGAGCAGCCACAGCAGGCGAGCGACATGGGGGAGGGTTTGTCAAGACCCAGAA GACCAATGCCTACCACAAGCGTTTCCAAGTCAAGTTCAAGAGACGGAGGCGACAAACAAAGATA TCACAGCTCAAATTGTCTATGCTACCATTGCTGGTGATATCGTGATGGCTGCTGCCTACTCCCA TGAGCTGCCTCGCTATGGTCTTGAAGTTGGTCTCACCAACTATGCGGCAGTAGCTTATTGCACT GGCTTGCTTTTGGCTCGCCGTGTGCTCAAGCTCCGTGGTTTGGACCAGGAGTACGAGGGCAATA TTGAG
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
						0.858017589

Conservation Information
Conserved circRNAs	NA
PMCS	0.858017589

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015

circRNA

Detail information of Os01g0896700_circ_ag.3

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