Plant Circular RNA Database

Detail information of Os06g0130000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0130000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_029515
					
						Alias
						Os06circ02026/Os_ciR2445
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 1596188-1596901  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os06g0130000						
					
						Parent gene annotation
						
							AAA-type ATPase, Defense response (Os06t0130000-01);Similar to T
obacco mosaic virus helicase domain-binding protein (Fragment). 
(Os06t0130000-02);Similar to ATP binding. (Os06t0130000-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0130000_circ_g.3 						
					
						Support reads
						5/4
					
						Tissues
						leaf/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
						Os06t0130000-03:2
Os06t0130000-02:2

General Information
CircRNA Name	Os06g0130000_circ_g.2
ID in PlantcircBase	osa_circ_029515
Alias	Os06circ02026/Os_ciR2445
Organism	Oryza sativa
Position	chr6: 1596188-1596901 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	SMALT, Segemehl, find_circ
Parent gene	Os06g0130000
Parent gene annotation	AAA-type ATPase, Defense response (Os06t0130000-01);Similar to T obacco mosaic virus helicase domain-binding protein (Fragment). (Os06t0130000-02);Similar to ATP binding. (Os06t0130000-03)
Parent gene strand	+
Alternative splicing	Os06g0130000_circ_g.3
Support reads	5/4
Tissues	leaf/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	Os06t0130000-03:2 Os06t0130000-02:2

			
						 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  
						
							TCACGGAGAAAAGAAAAGAAAAGAAAAGGCGCGGATGGACGCAATGCATGTGCCGTCGCACAGA
GCTGGATCTCGCAGCAGCAGCACCACACCACCTATGgcctatctgaaagcctgaaaagatcaaa
ttcttgagatgccatcacaactgaaactgaacacacgagcgaaccatcagttgatgcccaggtc
tattaaaa

						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: 373
Transcript exons: 1596188-1596276,1596618-1596901
GCCTATCTGAAAGCCTGAAAAGATCAAATTCTTGAGATGCCATCACAACTGAAACTGAACACAC
GAGCGAACCATCAGTTGATGCCCAGAATCCAGATAAGCCATCTCATGATTGGAGAAGAATGATT
GGTGGTGGCCAATTGGTGAGGCGACGAGGAGCTAATCATGTCCCGGACGAAGCCAGCGTCGCGA
TCGCCATGGCAGCAGCAGCAGGTGGACGTTTACTCATCCGCATGGCCCATTTAGCGCCCCCATT
TGCGATTTTTCGCAGCATCACGGAGAAAAGAAAAGAAAAGAAAAGGCGCGGATGGACGCAATGC
ATGTGCCGTCGCACAGAGCTGGATCTCGCAGCAGCAGCACCACACCACCTATG
						
						Genomic sequence
						
							GCCTATCTGAAAGCCTGAAAAGATCAAATTCTTGAGATGCCATCACAACTGAAACTGAACACAC
GAGCGAACCATCAGTTGATGCCCAGGTCTATTAAAACCTTTGGCTTTAGTTCTTTTTGAATTAT
TTATTGGATTGTTGAAACGAATTATTTGCGCTCCACGCTTTAAAAATGCATTTTCTCAAAAAAA
AACTTTCTTATATTATATATTGTATTTCTTAGATCACTTATTTTAGGTCATTTGTTAAGTTTAT
TTATCAAAATATTTTGTCCATCCATATAATCAAAATATAATCAAGTAGATAATCTGCAGCAACA
ATATGTACAATAACCTATTTCAAACTGAGGCAAATAGCTCTACCAATCCAGAATCATATAGCCA
TTTTTATCAGCTGATGCCCAGATCTAAGCAAGCTCTACAAATCCAGAATCCAGATAAGCCATCT
CATGATTGGAGAAGAATGATTGGTGGTGGCCAATTGGTGAGGCGACGAGGAGCTAATCATGTCC
CGGACGAAGCCAGCGTCGCGATCGCCATGGCAGCAGCAGCAGGTGGACGTTTACTCATCCGCAT
GGCCCATTTAGCGCCCCCATTTGCGATTTTTCGCAGCATCACGGAGAAAAGAAAAGAAAAGAAA
AGGCGCGGATGGACGCAATGCATGTGCCGTCGCACAGAGCTGGATCTCGCAGCAGCAGCACCAC
ACCACCTATG

Sequences
Splice junction sequence	TCACGGAGAAAAGAAAAGAAAAGAAAAGGCGCGGATGGACGCAATGCATGTGCCGTCGCACAGA GCTGGATCTCGCAGCAGCAGCACCACACCACCTATGgcctatctgaaagcctgaaaagatcaaa ttcttgagatgccatcacaactgaaactgaacacacgagcgaaccatcagttgatgcccaggtc tattaaaa
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: 373 Transcript exons: 1596188-1596276,1596618-1596901 GCCTATCTGAAAGCCTGAAAAGATCAAATTCTTGAGATGCCATCACAACTGAAACTGAACACAC GAGCGAACCATCAGTTGATGCCCAGAATCCAGATAAGCCATCTCATGATTGGAGAAGAATGATT GGTGGTGGCCAATTGGTGAGGCGACGAGGAGCTAATCATGTCCCGGACGAAGCCAGCGTCGCGA TCGCCATGGCAGCAGCAGCAGGTGGACGTTTACTCATCCGCATGGCCCATTTAGCGCCCCCATT TGCGATTTTTCGCAGCATCACGGAGAAAAGAAAAGAAAAGAAAAGGCGCGGATGGACGCAATGC ATGTGCCGTCGCACAGAGCTGGATCTCGCAGCAGCAGCACCACACCACCTATG
Genomic sequence	GCCTATCTGAAAGCCTGAAAAGATCAAATTCTTGAGATGCCATCACAACTGAAACTGAACACAC GAGCGAACCATCAGTTGATGCCCAGGTCTATTAAAACCTTTGGCTTTAGTTCTTTTTGAATTAT TTATTGGATTGTTGAAACGAATTATTTGCGCTCCACGCTTTAAAAATGCATTTTCTCAAAAAAA AACTTTCTTATATTATATATTGTATTTCTTAGATCACTTATTTTAGGTCATTTGTTAAGTTTAT TTATCAAAATATTTTGTCCATCCATATAATCAAAATATAATCAAGTAGATAATCTGCAGCAACA ATATGTACAATAACCTATTTCAAACTGAGGCAAATAGCTCTACCAATCCAGAATCATATAGCCA TTTTTATCAGCTGATGCCCAGATCTAAGCAAGCTCTACAAATCCAGAATCCAGATAAGCCATCT CATGATTGGAGAAGAATGATTGGTGGTGGCCAATTGGTGAGGCGACGAGGAGCTAATCATGTCC CGGACGAAGCCAGCGTCGCGATCGCCATGGCAGCAGCAGCAGGTGGACGTTTACTCATCCGCAT GGCCCATTTAGCGCCCCCATTTGCGATTTTTCGCAGCATCACGGAGAAAAGAAAAGAAAAGAAA AGGCGCGGATGGACGCAATGCATGTGCCGTCGCACAGAGCTGGATCTCGCAGCAGCAGCACCAC ACCACCTATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006491* osi_circ_016211 						
					
						PMCS
						0.358832796

Conservation Information
Conserved circRNAs	osi_circ_006491* osi_circ_016211
PMCS	0.358832796

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1596837-1596202(+)
1596652-1596194(+)
						
						Potential amino acid sequence
						
							MDAMHVPSHRAGSRSSSTTPPMAYLKA*(+)
MIGGGQLVRRRGANHVPDEASVAIAMAAAAGGRLLIRMAHLAPPFAIFRSITEKRKEKKRRGWT
QCMCRRTELDLAAAAPHHLWPI*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1596837-1596202(+) 1596652-1596194(+)
Potential amino acid sequence	MDAMHVPSHRAGSRSSSTTPPMAYLKA(+) MIGGGQLVRRRGANHVPDEASVAIAMAAAAGGRLLIRMAHLAPPFAIFRSITEKRKEKKRRGWT QCMCRRTELDLAAAAPHHLWPI(+)
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 Os06g0130000_circ_g.2

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