Plant Circular RNA Database

Detail information of Os08g0485400_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0485400_circ_g.1
					
						ID in PlantcircBase
						osa_circ_037414
					
						Alias
						Os_ciR1495
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 23990304-23991140  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os08g0485400						
					
						Parent gene annotation
						
							Similar to Oxidoreductase. (Os08t0485400-01);Similar to 2-nitrop
ropane dioxygenase-like protein. (Os08t0485400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						9/4
					
						Tissues
						root/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
						Os08t0485400-01:3
Os08t0485400-02:3

General Information
CircRNA Name	Os08g0485400_circ_g.1
ID in PlantcircBase	osa_circ_037414
Alias	Os_ciR1495
Organism	Oryza sativa
Position	chr8: 23990304-23991140 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os08g0485400
Parent gene annotation	Similar to Oxidoreductase. (Os08t0485400-01);Similar to 2-nitrop ropane dioxygenase-like protein. (Os08t0485400-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	9/4
Tissues	root/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	Os08t0485400-01:3 Os08t0485400-02:3

			
						 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  
						
							TGTCCTGAAAACAACCTTCTATGATCAGTGGAAGAATCTCCCAGAACAAGAAACAGAGGAAAAT
CAACCTATCATAGGCCACACTATCATCCATGGTGTGgttggtagctttgaggaggcagcgaaag
ctaaggaagctggtgtagatgggatcattgttcaaggctgtgaagcaggggggcatgtgattgg
tcaggtaa

									
								

					

						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: 462
Transcript exons: 23990304-23990399,23990662-23990807,23990921-23991140
GTTGGTAGCTTTGAGGAGGCAGCGAAAGCTAAGGAAGCTGGTGTAGATGGGATCATTGTTCAAG
GCTGTGAAGCAGGGGGGCATGTGATTGGTCAGGAAGGACTGTTACCTTTGCTGCCCAGAGTGGT
GGATCTAGTTTCAGATACTGACATTTCAGTTATCGCCGCTGGTGGAATTGTAGATGGCCGTGGC
TATGCTGCTGCATTGGCACTTGGTGCTCAGGGCGTTTGCTTAGGAACTAGGTTCTTGACCACTG
AAGAAAGTTTTGCACATCCCTTGTATAAGAAAAGGCTAATCGAGATTAATTGCACGGGCTATAC
CAATGTGTTTGGGCGTGCTAGATGGCCTGGTGCTCCCCAACGTGTCCTGAAAACAACCTTCTAT
GATCAGTGGAAGAATCTCCCAGAACAAGAAACAGAGGAAAATCAACCTATCATAGGCCACACTA
TCATCCATGGTGTG
Transcript length: 478
Transcript exons: 23990304-23990399,23990662-23990807,23990905-23991140
GTTGGTAGCTTTGAGGAGGCAGCGAAAGCTAAGGAAGCTGGTGTAGATGGGATCATTGTTCAAG
GCTGTGAAGCAGGGGGGCATGTGATTGGTCAGGAAGGACTGTTACCTTTGCTGCCCAGAGTGGT
GGATCTAGTTTCAGATACTGACATTTCAGTTATCGCCGCTGGTGGAATTGTAGATGGCCGTGGC
TATGCTGCTGCATTGGCACTTGGTGCTCAGGGCGTTTGCTTAGGAACTAGTTCCATGAACATTC
AGGTTCTTGACCACTGAAGAAAGTTTTGCACATCCCTTGTATAAGAAAAGGCTAATCGAGATTA
ATTGCACGGGCTATACCAATGTGTTTGGGCGTGCTAGATGGCCTGGTGCTCCCCAACGTGTCCT
GAAAACAACCTTCTATGATCAGTGGAAGAATCTCCCAGAACAAGAAACAGAGGAAAATCAACCT
ATCATAGGCCACACTATCATCCATGGTGTG
						
					

						Genomic sequence
						
							GTTGGTAGCTTTGAGGAGGCAGCGAAAGCTAAGGAAGCTGGTGTAGATGGGATCATTGTTCAAG
GCTGTGAAGCAGGGGGGCATGTGATTGGTCAGGTAAGCCAGTGTTTTGTAGTTTTGGTTTGTTA
AAAGTCTCAGGCAGCCTTTCAAGAAGCTTCTTGGTCAACTTCAGGAGTGTTCATGCATGCATTT
AGAATGTACAGTATGCCTCGAATCTATATAAAAGGCTAAAGATTTAGCTTAGGGCCCCTGTTGT
GGTGCCATCTCTAAAGCATAACATACCTCCCTAGCTTGTCGCCATATAATTATATTCATGAGAT
TTCTTCTCCAATGCCTTTTTTGTTGTGGGGAAAAACAGGAAGGACTGTTACCTTTGCTGCCCAG
AGTGGTGGATCTAGTTTCAGATACTGACATTTCAGTTATCGCCGCTGGTGGAATTGTAGATGGC
CGTGGCTATGCTGCTGCATTGGCACTTGGTGCTCAGGGCGTTTGCTTAGGAACTAGGTATTCTT
GCAATCTTTTCTCTGCACGAGTTTCTCGATAGTCCATCTGCAATCTTTTCTTTGCTTAGGAACT
CATAGTCTGATTTTCACATTACTAGTTCCATGAACATTCAGGTTCTTGACCACTGAAGAAAGTT
TTGCACATCCCTTGTATAAGAAAAGGCTAATCGAGATTAATTGCACGGGCTATACCAATGTGTT
TGGGCGTGCTAGATGGCCTGGTGCTCCCCAACGTGTCCTGAAAACAACCTTCTATGATCAGTGG
AAGAATCTCCCAGAACAAGAAACAGAGGAAAATCAACCTATCATAGGCCACACTATCATCCATG
GTGTG
						
					

			
		

Sequences
Splice junction sequence	TGTCCTGAAAACAACCTTCTATGATCAGTGGAAGAATCTCCCAGAACAAGAAACAGAGGAAAAT CAACCTATCATAGGCCACACTATCATCCATGGTGTGgttggtagctttgaggaggcagcgaaag ctaaggaagctggtgtagatgggatcattgttcaaggctgtgaagcaggggggcatgtgattgg tcaggtaa
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: 462 Transcript exons: 23990304-23990399,23990662-23990807,23990921-23991140 GTTGGTAGCTTTGAGGAGGCAGCGAAAGCTAAGGAAGCTGGTGTAGATGGGATCATTGTTCAAG GCTGTGAAGCAGGGGGGCATGTGATTGGTCAGGAAGGACTGTTACCTTTGCTGCCCAGAGTGGT GGATCTAGTTTCAGATACTGACATTTCAGTTATCGCCGCTGGTGGAATTGTAGATGGCCGTGGC TATGCTGCTGCATTGGCACTTGGTGCTCAGGGCGTTTGCTTAGGAACTAGGTTCTTGACCACTG AAGAAAGTTTTGCACATCCCTTGTATAAGAAAAGGCTAATCGAGATTAATTGCACGGGCTATAC CAATGTGTTTGGGCGTGCTAGATGGCCTGGTGCTCCCCAACGTGTCCTGAAAACAACCTTCTAT GATCAGTGGAAGAATCTCCCAGAACAAGAAACAGAGGAAAATCAACCTATCATAGGCCACACTA TCATCCATGGTGTG Transcript length: 478 Transcript exons: 23990304-23990399,23990662-23990807,23990905-23991140 GTTGGTAGCTTTGAGGAGGCAGCGAAAGCTAAGGAAGCTGGTGTAGATGGGATCATTGTTCAAG GCTGTGAAGCAGGGGGGCATGTGATTGGTCAGGAAGGACTGTTACCTTTGCTGCCCAGAGTGGT GGATCTAGTTTCAGATACTGACATTTCAGTTATCGCCGCTGGTGGAATTGTAGATGGCCGTGGC TATGCTGCTGCATTGGCACTTGGTGCTCAGGGCGTTTGCTTAGGAACTAGTTCCATGAACATTC AGGTTCTTGACCACTGAAGAAAGTTTTGCACATCCCTTGTATAAGAAAAGGCTAATCGAGATTA ATTGCACGGGCTATACCAATGTGTTTGGGCGTGCTAGATGGCCTGGTGCTCCCCAACGTGTCCT GAAAACAACCTTCTATGATCAGTGGAAGAATCTCCCAGAACAAGAAACAGAGGAAAATCAACCT ATCATAGGCCACACTATCATCCATGGTGTG
Genomic sequence	GTTGGTAGCTTTGAGGAGGCAGCGAAAGCTAAGGAAGCTGGTGTAGATGGGATCATTGTTCAAG GCTGTGAAGCAGGGGGGCATGTGATTGGTCAGGTAAGCCAGTGTTTTGTAGTTTTGGTTTGTTA AAAGTCTCAGGCAGCCTTTCAAGAAGCTTCTTGGTCAACTTCAGGAGTGTTCATGCATGCATTT AGAATGTACAGTATGCCTCGAATCTATATAAAAGGCTAAAGATTTAGCTTAGGGCCCCTGTTGT GGTGCCATCTCTAAAGCATAACATACCTCCCTAGCTTGTCGCCATATAATTATATTCATGAGAT TTCTTCTCCAATGCCTTTTTTGTTGTGGGGAAAAACAGGAAGGACTGTTACCTTTGCTGCCCAG AGTGGTGGATCTAGTTTCAGATACTGACATTTCAGTTATCGCCGCTGGTGGAATTGTAGATGGC CGTGGCTATGCTGCTGCATTGGCACTTGGTGCTCAGGGCGTTTGCTTAGGAACTAGGTATTCTT GCAATCTTTTCTCTGCACGAGTTTCTCGATAGTCCATCTGCAATCTTTTCTTTGCTTAGGAACT CATAGTCTGATTTTCACATTACTAGTTCCATGAACATTCAGGTTCTTGACCACTGAAGAAAGTT TTGCACATCCCTTGTATAAGAAAAGGCTAATCGAGATTAATTGCACGGGCTATACCAATGTGTT TGGGCGTGCTAGATGGCCTGGTGCTCCCCAACGTGTCCTGAAAACAACCTTCTATGATCAGTGG AAGAATCTCCCAGAACAAGAAACAGAGGAAAATCAACCTATCATAGGCCACACTATCATCCATG GTGTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007816* osi_circ_018005 						
					
						PMCS
						0.40457264

Conservation Information
Conserved circRNAs	osi_circ_007816* osi_circ_018005
PMCS	0.40457264

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23990389-23990972(-)
23990361-23991106(-)
						
						Potential amino acid sequence
						
							MPPCFTALNNDPIYTSFLSFRCLLKATNHTMDDSVAYDRLIFLCFLFWEILPLIIEGCFQDTLG
STRPSSTPKHIGIARAINLD*(-)
MIPSTPASLAFAASSKLPTTPWMIVWPMIG*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23990389-23990972(-) 23990361-23991106(-)
Potential amino acid sequence	MPPCFTALNNDPIYTSFLSFRCLLKATNHTMDDSVAYDRLIFLCFLFWEILPLIIEGCFQDTLG STRPSSTPKHIGIARAINLD(-) MIPSTPASLAFAASSKLPTTPWMIVWPMIG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os08g0485400_circ_g.1

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