Plant Circular RNA Database

Detail information of Os03g0253200_circ_ig.2

			
						 General Information
					
						CircRNA Name
						Os03g0253200_circ_ig.2
					
						ID in PlantcircBase
						osa_circ_018888
					
						Alias
						Os03circ08779/Os_ciR769
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 8096212-8096948  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ig-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Os03g0253200_circ_ig.1 Os03g0253200_circ_ig.3 						
					
						Support reads
						14/40
					
						Tissues
						leaf and panicle/root
					
						Exon boundary  
						
							No-No							"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
						NA

General Information
CircRNA Name	Os03g0253200_circ_ig.2
ID in PlantcircBase	osa_circ_018888
Alias	Os03circ08779/Os_ciR769
Organism	Oryza sativa
Position	chr3: 8096212-8096948 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ig-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Os03g0253200_circ_ig.1 Os03g0253200_circ_ig.3
Support reads	14/40
Tissues	leaf and panicle/root
Exon boundary	No-No "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	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  
						
							CCCATGGGACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGG
CTATGATGTTAAGTTCACTTCTACTTTCAGCTTCACctctccttgctcgacctccaacacatta
gacctccaacctctccttgctcgacctccaacgtattagcagatcaaacacgcacctctccttg
cgcgacct

									
								

					

						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: 162
Transcript exons: 8096212-8096288,8096864-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCT
ATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC
Transcript length: 164
Transcript exons: 8096212-8096307,8096881-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACACGCACCTCTCCTTGCGCGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGG
CTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC
Transcript length: 186
Transcript exons: 8096212-8096326,8096878-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCCTGAAAGCATGTC
AGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC
Transcript length: 196
Transcript exons: 8096212-8096286,8096828-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAATCCAGTTGATTGTCAATAAACCCATGGGACAGAATGGTACATGTGTCATCTG
AAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTTCAGCT
TCAC
Transcript length: 219
Transcript exons: 8096212-8096254,8096773-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCGTTTTTCCATTGATATGCGAA
TCAGAGAAAGGGCATCATACTTCAAATACATAAAATCCAGTTGATTGTCAATAAACCCATGGGA
CAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGT
TAAGTTCACTTCTACTTTCAGCTTCAC
Transcript length: 230
Transcript exons: 8096212-8096350,8096858-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC
ATGTGCATTAACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTA
GGCTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC
Transcript length: 248
Transcript exons: 8096212-8096273,8096763-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAC
GGTTTTGAGTTTTTCCATTGATATGCGAATCAGAGAAAGGGCATCATACTTCAAATACATAAAA
TCCAGTTGATTGTCAATAAACCCATGGGACAGAATGGTACATGTGTCATCTGAAAGCATGTCAG
TTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC
Transcript length: 274
Transcript exons: 8096212-8096369,8096833-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC
ATGTGCATTAACTGTATCGTTCCATTGTCAGTTGATTGTCAATAAACCCATGGGACAGAATGGT
ACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCAC
TTCTACTTTCAGCTTCAC
Transcript length: 277
Transcript exons: 8096212-8096348,8096809-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC
ATGTGCATTCATACTTCAAATACATAAAATCCAGTTGATTGTCAATAAACCCATGGGACAGAAT
GGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTT
CACTTCTACTTTCAGCTTCAC
Transcript length: 285
Transcript exons: 8096212-8096281,8096287-8096387,8096835-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGCATGTG
CATTAACTGTATCGTTCCATTGTCATACGGAATTACGAAACTGTGATTGTCAATAAACCCATGG
GACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGAT
GTTAAGTTCACTTCTACTTTCAGCTTCAC
Transcript length: 329
Transcript exons: 8096212-8096377,8096741-8096841,8096887-8096948
CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC
ATGTGCATTAACTGTATCGTTCCATTGTCATACGGAATCTGTCATCTGCAAAATCTAGAGACGG
TTTTGAGTTTTTCCATTGATATGCGAATCAGAGAAAGGGCATCATACTTCAAATACATAAAATC
CAGTTGATTGTTGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTT
CAGCTTCAC
						
					

						Genomic sequence
						
							CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT
TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC
ATGTGCATTAACTGTATCGTTCCATTGTCATACGGAATTACGAAACTGGAAAATAGCACGATTT
GTATGTCTCCGTGTGTTGTTTAGTACAATGTAGAAAATAGTAATATTTCTGCACAGGAAATTAT
CTCACAGTATATTAGCAGAAAGTAATCAGCCTGATCGGAAGTGCTGGCTGCAGCAGCGCAGCTG
TAGTCAGTCAGCCCCAATCCAAACCAAAGAGTATTTGCTGCAGCAGCCAGCACAACCGATCAAG
CCCAATGCCAACAAGAGAATTGCGGAACCACAACCGCACAACTGCCACCTGCATATATCATGCA
CAAGCAGTGAGTTTGTGGAACGAAGAAGAGCTACAAATTAGAAATGAAGACATGATTGAGGCAA
TTCAGAGAACTTCGTAACTGTCATCTGCAAAATCTAGAGACGGTTTTGAGTTTTTCCATTGATA
TGCGAATCAGAGAAAGGGCATCATACTTCAAATACATAAAATCCAGTTGATTGTCAATAAACCC
ATGGGACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTA
TGATGTTAAGTTCACTTCTACTTTCAGCTTCAC
						
					

			
		

Sequences
Splice junction sequence	CCCATGGGACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGG CTATGATGTTAAGTTCACTTCTACTTTCAGCTTCACctctccttgctcgacctccaacacatta gacctccaacctctccttgctcgacctccaacgtattagcagatcaaacacgcacctctccttg cgcgacct
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: 162 Transcript exons: 8096212-8096288,8096864-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCT ATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC Transcript length: 164 Transcript exons: 8096212-8096307,8096881-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACACGCACCTCTCCTTGCGCGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGG CTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC Transcript length: 186 Transcript exons: 8096212-8096326,8096878-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCCTGAAAGCATGTC AGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC Transcript length: 196 Transcript exons: 8096212-8096286,8096828-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAATCCAGTTGATTGTCAATAAACCCATGGGACAGAATGGTACATGTGTCATCTG AAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTTCAGCT TCAC Transcript length: 219 Transcript exons: 8096212-8096254,8096773-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCGTTTTTCCATTGATATGCGAA TCAGAGAAAGGGCATCATACTTCAAATACATAAAATCCAGTTGATTGTCAATAAACCCATGGGA CAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGT TAAGTTCACTTCTACTTTCAGCTTCAC Transcript length: 230 Transcript exons: 8096212-8096350,8096858-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC ATGTGCATTAACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTA GGCTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC Transcript length: 248 Transcript exons: 8096212-8096273,8096763-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAC GGTTTTGAGTTTTTCCATTGATATGCGAATCAGAGAAAGGGCATCATACTTCAAATACATAAAA TCCAGTTGATTGTCAATAAACCCATGGGACAGAATGGTACATGTGTCATCTGAAAGCATGTCAG TTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTTCAGCTTCAC Transcript length: 274 Transcript exons: 8096212-8096369,8096833-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC ATGTGCATTAACTGTATCGTTCCATTGTCAGTTGATTGTCAATAAACCCATGGGACAGAATGGT ACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCAC TTCTACTTTCAGCTTCAC Transcript length: 277 Transcript exons: 8096212-8096348,8096809-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC ATGTGCATTCATACTTCAAATACATAAAATCCAGTTGATTGTCAATAAACCCATGGGACAGAAT GGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTT CACTTCTACTTTCAGCTTCAC Transcript length: 285 Transcript exons: 8096212-8096281,8096287-8096387,8096835-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGCATGTG CATTAACTGTATCGTTCCATTGTCATACGGAATTACGAAACTGTGATTGTCAATAAACCCATGG GACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTATGAT GTTAAGTTCACTTCTACTTTCAGCTTCAC Transcript length: 329 Transcript exons: 8096212-8096377,8096741-8096841,8096887-8096948 CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC ATGTGCATTAACTGTATCGTTCCATTGTCATACGGAATCTGTCATCTGCAAAATCTAGAGACGG TTTTGAGTTTTTCCATTGATATGCGAATCAGAGAAAGGGCATCATACTTCAAATACATAAAATC CAGTTGATTGTTGTCAGTTTTCACCGCTTTGCGTAGGCTATGATGTTAAGTTCACTTCTACTTT CAGCTTCAC
Genomic sequence	CTCTCCTTGCTCGACCTCCAACACATTAGACCTCCAACCTCTCCTTGCTCGACCTCCAACGTAT TAGCAGATCAAACACGCACCTCTCCTTGCGCGACCTCCGTGGAATTTTATCTCGTCAAGGGGGC ATGTGCATTAACTGTATCGTTCCATTGTCATACGGAATTACGAAACTGGAAAATAGCACGATTT GTATGTCTCCGTGTGTTGTTTAGTACAATGTAGAAAATAGTAATATTTCTGCACAGGAAATTAT CTCACAGTATATTAGCAGAAAGTAATCAGCCTGATCGGAAGTGCTGGCTGCAGCAGCGCAGCTG TAGTCAGTCAGCCCCAATCCAAACCAAAGAGTATTTGCTGCAGCAGCCAGCACAACCGATCAAG CCCAATGCCAACAAGAGAATTGCGGAACCACAACCGCACAACTGCCACCTGCATATATCATGCA CAAGCAGTGAGTTTGTGGAACGAAGAAGAGCTACAAATTAGAAATGAAGACATGATTGAGGCAA TTCAGAGAACTTCGTAACTGTCATCTGCAAAATCTAGAGACGGTTTTGAGTTTTTCCATTGATA TGCGAATCAGAGAAAGGGCATCATACTTCAAATACATAAAATCCAGTTGATTGTCAATAAACCC ATGGGACAGAATGGTACATGTGTCATCTGAAAGCATGTCAGTTTTCACCGCTTTGCGTAGGCTA TGATGTTAAGTTCACTTCTACTTTCAGCTTCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004683* osi_circ_014136 osi_circ_014137 						
					
						PMCS
						0.388656716

Conservation Information
Conserved circRNAs	osi_circ_004683* osi_circ_014136 osi_circ_014137
PMCS	0.388656716

			
						 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 Os03g0253200_circ_ig.2

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