Plant Circular RNA Database

Detail information of Os08g0483200_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os08g0483200_circ_g.4
					
						ID in PlantcircBase
						osa_circ_037404
					
						Alias
						Os08circ11640/Os_ciR1303
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 23873917-23875208  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os08g0483200						
					
						Parent gene annotation
						
							Nucleotide-binding, alpha-beta plait domain containing protein. 
(Os08t0483200-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0483200_circ_g.2 Os08g0483200_circ_g.3 						
					
						Support reads
						4/17/4
					
						Tissues
						leaf and panicle/root/shoot, 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
						Os08t0483200-01:3

General Information
CircRNA Name	Os08g0483200_circ_g.4
ID in PlantcircBase	osa_circ_037404
Alias	Os08circ11640/Os_ciR1303
Organism	Oryza sativa
Position	chr8: 23873917-23875208 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, find_circ
Parent gene	Os08g0483200
Parent gene annotation	Nucleotide-binding, alpha-beta plait domain containing protein. (Os08t0483200-01)
Parent gene strand	-
Alternative splicing	Os08g0483200_circ_g.2 Os08g0483200_circ_g.3
Support reads	4/17/4
Tissues	leaf and panicle/root/shoot, 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	Os08t0483200-01:3

			
						 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  
						
							CAGTCGAATTTAGATGGTTGAGTGCTGAAAGAGCCTCCTCTTCTGAACCCATGGTTACAAACGC
CAATCCTCTGTTTCTGGTCGAATTGTACATCGAGAGtgggaaaatgtcagttaagcaatcctca
atcatttaagttctcggtgtgttcccatgacaattgatgcttagctaacaatctgctcagatga
ttctgcct

									
								

					

						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: 254
Transcript exons: 23873917-23874026,23875065-23875208
TGGGAAAATGTCAGTTAAGCAATCCTCAATCATTTAAGTTCTCGGTGTGTTCCCATGACAATTG
ATGCTTAGCTAACAATCTGCTCAGATGATTCTGCCTTCAGATCCTCGTCTGATACAAATAGACA
TTCCTTCCAGAACAATCTAGATCTTACAGTCGAATTTAGATGGTTGAGTGCTGAAAGAGCCTCC
TCTTCTGAACCCATGGTTACAAACGCCAATCCTCTGTTTCTGGTCGAATTGTACATCGAGAG
Transcript length: 569
Transcript exons: 23873917-23874104,23874227-23874508,23875110-23875208
TGGGAAAATGTCAGTTAAGCAATCCTCAATCATTTAAGTTCTCGGTGTGTTCCCATGACAATTG
ATGCTTAGCTAACAATCTGCTCAGATGATTCTGCCTTCAGATCCTCTTCCGTTGGTGCAGCAGA
TTTATTCTTTTTGGCATTGTCATCTTTGAACATCACGTTAATGGATCTTCCCATCAATTTCGTG
CCATTGAAGGTAGATATGGCAGCCTCTGCTGCCTCTTTTGAGGAAAAGGAAACAAATCCATAAC
CAGCAGATCGCCTCGGACTTGTGGTATGGAAGACAACTTCAACTGATTGAACACCTGGGGTTGA
TGCAAATAATTCACGAAGATGGCGAGATCTCACTCTCCACGTCAGATTACCCACAAAAACGCTG
TGCTTCGGCATGGGAGCTGATGGCACAACATACTGCTTCTTTCTCGATCTAGTAAAGTCTACCT
TAATTGTTCTATCATTTAGAGTAGTCGAATTTAGATGGTTGAGTGCTGAAAGAGCCTCCTCTTC
TGAACCCATGGTTACAAACGCCAATCCTCTGTTTCTGGTCGAATTGTACATCGAGAG
						
					

						Genomic sequence
						
							TGGGAAAATGTCAGTTAAGCAATCCTCAATCATTTAAGTTCTCGGTGTGTTCCCATGACAATTG
ATGCTTAGCTAACAATCTGCTCAGATGATTCTGCCTTCAGATCCTCTTCCGTTGGTGCAGCAGA
TTTATTCTTTTTGGCATTGTCATCTTTGAACATCACGTTAATGGATCTTCCCATCAATTTCTGT
GATATATTTCATAGGTCAGAAATAGCATCAAAACACAATCATGTATTAGAATTTGGGCCGTACA
CAAACCAAAACTTGTACTATATTTTATTTCTAAGCTACATTTCAGAATACTTACCGTGCCATTG
AAGGTAGATATGGCAGCCTCTGCTGCCTCTTTTGAGGAAAAGGAAACAAATCCATAACCAGCAG
ATCGCCTCGGACTTGTGGTATGGAAGACAACTTCAACTGATTGAACACCTGGGGTTGATGCAAA
TAATTCACGAAGATGGCGAGATCTCACTCTCCACGTCAGATTACCCACAAAAACGCTGTGCTTC
GGCATGGGAGCTGATGGCACAACATACTGCTTCTTTCTCGATCTAGTAAAGTCTACCTTAATTG
TTCTATCATTTAGAGTCTACAAGAGAAAATGAGTAGAAAGACAGTTAGATGACAAAAAAATAAA
GAGTAAAATGCACCAGCGGTCCTTAAACTTGTCAGCAGGTTTCACTTAGATCCACGAACTTGTA
AAGCGCACATCGAGGTCCCTAAACTTGGTTTATTGTATCATCCCAGTCCAAAGTCGCGTTTGAC
CGTGGTCTTGCCTACGTGGCACGCCATGTGGACGATGACATGGATTTTTTTTTCTCCCTTCTTC
TTTCTCTTTTCTCTTTAATGAAAATACGATGGCATGGACGATAACGTGTATGAGGCATTTTCAT
CTTTTCGACAAGGAAGAAAGAGAAAAAAAGAAGGAAAAAGGGAGAAAAAATAAAATAAAAATCC
ATGTCATCGTCCACGTGGCGTGCCACATAGGCAAGACCACGGTCAAACGCGGCTTTGGACCGGG
ATGATACAATAAACCAAGTTTAGGGACCTCGATGTGCGCTTTGCAAATTCGTGGACCTAAGTGA
AACCTGCTGACAAGTTTAAGGACCGCTGGTGCATTTTACTCAAAAAATAAATAAGAGTATGTCT
GATACAAATAGACATTCCTTCCAGAACAATCTAGATCTTACAGTCGAATTTAGATGGTTGAGTG
CTGAAAGAGCCTCCTCTTCTGAACCCATGGTTACAAACGCCAATCCTCTGTTTCTGGTCGAATT
GTACATCGAGAG
						
					

			
		

Sequences
Splice junction sequence	CAGTCGAATTTAGATGGTTGAGTGCTGAAAGAGCCTCCTCTTCTGAACCCATGGTTACAAACGC CAATCCTCTGTTTCTGGTCGAATTGTACATCGAGAGtgggaaaatgtcagttaagcaatcctca atcatttaagttctcggtgtgttcccatgacaattgatgcttagctaacaatctgctcagatga ttctgcct
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: 254 Transcript exons: 23873917-23874026,23875065-23875208 TGGGAAAATGTCAGTTAAGCAATCCTCAATCATTTAAGTTCTCGGTGTGTTCCCATGACAATTG ATGCTTAGCTAACAATCTGCTCAGATGATTCTGCCTTCAGATCCTCGTCTGATACAAATAGACA TTCCTTCCAGAACAATCTAGATCTTACAGTCGAATTTAGATGGTTGAGTGCTGAAAGAGCCTCC TCTTCTGAACCCATGGTTACAAACGCCAATCCTCTGTTTCTGGTCGAATTGTACATCGAGAG Transcript length: 569 Transcript exons: 23873917-23874104,23874227-23874508,23875110-23875208 TGGGAAAATGTCAGTTAAGCAATCCTCAATCATTTAAGTTCTCGGTGTGTTCCCATGACAATTG ATGCTTAGCTAACAATCTGCTCAGATGATTCTGCCTTCAGATCCTCTTCCGTTGGTGCAGCAGA TTTATTCTTTTTGGCATTGTCATCTTTGAACATCACGTTAATGGATCTTCCCATCAATTTCGTG CCATTGAAGGTAGATATGGCAGCCTCTGCTGCCTCTTTTGAGGAAAAGGAAACAAATCCATAAC CAGCAGATCGCCTCGGACTTGTGGTATGGAAGACAACTTCAACTGATTGAACACCTGGGGTTGA TGCAAATAATTCACGAAGATGGCGAGATCTCACTCTCCACGTCAGATTACCCACAAAAACGCTG TGCTTCGGCATGGGAGCTGATGGCACAACATACTGCTTCTTTCTCGATCTAGTAAAGTCTACCT TAATTGTTCTATCATTTAGAGTAGTCGAATTTAGATGGTTGAGTGCTGAAAGAGCCTCCTCTTC TGAACCCATGGTTACAAACGCCAATCCTCTGTTTCTGGTCGAATTGTACATCGAGAG
Genomic sequence	TGGGAAAATGTCAGTTAAGCAATCCTCAATCATTTAAGTTCTCGGTGTGTTCCCATGACAATTG ATGCTTAGCTAACAATCTGCTCAGATGATTCTGCCTTCAGATCCTCTTCCGTTGGTGCAGCAGA TTTATTCTTTTTGGCATTGTCATCTTTGAACATCACGTTAATGGATCTTCCCATCAATTTCTGT GATATATTTCATAGGTCAGAAATAGCATCAAAACACAATCATGTATTAGAATTTGGGCCGTACA CAAACCAAAACTTGTACTATATTTTATTTCTAAGCTACATTTCAGAATACTTACCGTGCCATTG AAGGTAGATATGGCAGCCTCTGCTGCCTCTTTTGAGGAAAAGGAAACAAATCCATAACCAGCAG ATCGCCTCGGACTTGTGGTATGGAAGACAACTTCAACTGATTGAACACCTGGGGTTGATGCAAA TAATTCACGAAGATGGCGAGATCTCACTCTCCACGTCAGATTACCCACAAAAACGCTGTGCTTC GGCATGGGAGCTGATGGCACAACATACTGCTTCTTTCTCGATCTAGTAAAGTCTACCTTAATTG TTCTATCATTTAGAGTCTACAAGAGAAAATGAGTAGAAAGACAGTTAGATGACAAAAAAATAAA GAGTAAAATGCACCAGCGGTCCTTAAACTTGTCAGCAGGTTTCACTTAGATCCACGAACTTGTA AAGCGCACATCGAGGTCCCTAAACTTGGTTTATTGTATCATCCCAGTCCAAAGTCGCGTTTGAC CGTGGTCTTGCCTACGTGGCACGCCATGTGGACGATGACATGGATTTTTTTTTCTCCCTTCTTC TTTCTCTTTTCTCTTTAATGAAAATACGATGGCATGGACGATAACGTGTATGAGGCATTTTCAT CTTTTCGACAAGGAAGAAAGAGAAAAAAAGAAGGAAAAAGGGAGAAAAAATAAAATAAAAATCC ATGTCATCGTCCACGTGGCGTGCCACATAGGCAAGACCACGGTCAAACGCGGCTTTGGACCGGG ATGATACAATAAACCAAGTTTAGGGACCTCGATGTGCGCTTTGCAAATTCGTGGACCTAAGTGA AACCTGCTGACAAGTTTAAGGACCGCTGGTGCATTTTACTCAAAAAATAAATAAGAGTATGTCT GATACAAATAGACATTCCTTCCAGAACAATCTAGATCTTACAGTCGAATTTAGATGGTTGAGTG CTGAAAGAGCCTCCTCTTCTGAACCCATGGTTACAAACGCCAATCCTCTGTTTCTGGTCGAATT GTACATCGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007814* osi_circ_018001 						
					
						PMCS
						0.475819935

Conservation Information
Conserved circRNAs	osi_circ_007814* osi_circ_018001
PMCS	0.475819935

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23874433-23873950(+)
23873951-23873987(-)
						
						Potential amino acid sequence
						
							MGADGTTYCFFLDLVKSTLIVLSFRVVEFRWLSAERASSSEPMVTNANPLFLVELYIESGKMSV
KQSSII*(+)
MIEDCLTDIFPLSMYNSTRNRGLAFVTMGSEEEALSALNHLNSTTLNDRTIKVDFTRSRKKQYV
VPSAPMPKHSVFVGNLTWRVRSRHLRELFASTPGVQSVEVVFHTTSPRRSAGYGFVSFSSKEAA
EAAISTFNGTKLMGRSINVMFKDDNAKKNKSAAPTEEDLKAESSEQIVS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23874433-23873950(+) 23873951-23873987(-)
Potential amino acid sequence	MGADGTTYCFFLDLVKSTLIVLSFRVVEFRWLSAERASSSEPMVTNANPLFLVELYIESGKMSV KQSSII(+) MIEDCLTDIFPLSMYNSTRNRGLAFVTMGSEEEALSALNHLNSTTLNDRTIKVDFTRSRKKQYV VPSAPMPKHSVFVGNLTWRVRSRHLRELFASTPGVQSVEVVFHTTSPRRSAGYGFVSFSSKEAA EAAISTFNGTKLMGRSINVMFKDDNAKKNKSAAPTEEDLKAESSEQIVS(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os08g0483200_circ_g.4

Address

Any questions?

Supported by