Plant Circular RNA Database

Detail information of Os05g0317200_circ_g.11

			
						 General Information
					
						CircRNA Name
						Os05g0317200_circ_g.11
					
						ID in PlantcircBase
						osa_circ_027421
					
						Alias
						Os_ciR2066
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 14699111-14699759  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0317200						
					
						Parent gene annotation
						
							AMP-dependent synthetase and ligase domain containing protein. (
Os05t0317200-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0317200_circ_g.1 Os05g0317200_circ_g.2 Os05g0317200_circ_g.3 Os05g0317200_circ_g.4 Os05g0317200_circ_g.5 Os05g0317200_circ_g.6 Os05g0317200_circ_g.7 Os05g0317200_circ_g.8 Os05g0317200_circ_g.9 Os05g0317200_circ_g.10 						
					
						Support reads
						10/3
					
						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
						Os05t0317200-01:3

General Information
CircRNA Name	Os05g0317200_circ_g.11
ID in PlantcircBase	osa_circ_027421
Alias	Os_ciR2066
Organism	Oryza sativa
Position	chr5: 14699111-14699759 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0317200
Parent gene annotation	AMP-dependent synthetase and ligase domain containing protein. ( Os05t0317200-01)
Parent gene strand	+
Alternative splicing	Os05g0317200_circ_g.1 Os05g0317200_circ_g.2 Os05g0317200_circ_g.3 Os05g0317200_circ_g.4 Os05g0317200_circ_g.5 Os05g0317200_circ_g.6 Os05g0317200_circ_g.7 Os05g0317200_circ_g.8 Os05g0317200_circ_g.9 Os05g0317200_circ_g.10
Support reads	10/3
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	Os05t0317200-01:3

			
						 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  
						
							AGAGCAGTGGGCTCAAAATTCTGGGATTAACTACAAAAACTTTGATGAGCTGTGCCACAATGAT
CAAGCCATTAAGGAGGTCCAGCAATCTCTATCAAAGctcgtttcatgggaagaaggtggctata
aaatttctgattctccaatgccccgaggagaggttgtagttggtggatacagcataacaaaagg
ttatttca

						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: 474
Transcript exons: 14699111-14699242,14699321-14699455,14699553-14699759
CTCGTTTCATGGGAAGAAGGTGGCTATAAAATTTCTGATTCTCCAATGCCCCGAGGAGAGGTTG
TAGTTGGTGGATACAGCATAACAAAAGGTTATTTCAACAATGAAGCAAAAACAAATGAGGTCTA
CAAGGTAGATGAGAGGGGAATGCGCTGGTTTTACACTGGAGATATTGGCCAGTTCCATCCTGAT
GGGTGCCTCGAGATCATTGATAGAAAAAAGGATATAGTAAAACTTCAGCATGGAGAATATGTGT
CTCTTGGCAAGGTTGAATCAGCTCTAACTACTAGCAATTATGTGGACAGCATAATGGTTTATGC
TGATCCATTTCATAATTATTGTGTGGCGTTGGTAGTGCCGGCGCACCAGGCCTTAGAGCAGTGG
GCTCAAAATTCTGGGATTAACTACAAAAACTTTGATGAGCTGTGCCACAATGATCAAGCCATTA
AGGAGGTCCAGCAATCTCTATCAAAG
						
						Genomic sequence
						
							CTCGTTTCATGGGAAGAAGGTGGCTATAAAATTTCTGATTCTCCAATGCCCCGAGGAGAGGTTG
TAGTTGGTGGATACAGCATAACAAAAGGTTATTTCAACAATGAAGCAAAAACAAATGAGGTCTA
CAAGGTAAAGGATCTTTGCCAATCATCCTTGGTGGTCAAATACAATATTTTTCACTTCAATTTT
TGTTTCTGATTACTCCAGGTAGATGAGAGGGGAATGCGCTGGTTTTACACTGGAGATATTGGCC
AGTTCCATCCTGATGGGTGCCTCGAGATCATTGATAGAAAAAAGGATATAGTAAAACTTCAGCA
TGGAGAATATGTGTCTCTTGGCAAGGTTTGGTTACAATAGTGCCTCAACCATTATGGGTATTCT
TTTTGTATTATAATTATATTAAACCCCCTCTCTCTCTCGTTCTCTCTGGCCTTTACAGGTTGAA
TCAGCTCTAACTACTAGCAATTATGTGGACAGCATAATGGTTTATGCTGATCCATTTCATAATT
ATTGTGTGGCGTTGGTAGTGCCGGCGCACCAGGCCTTAGAGCAGTGGGCTCAAAATTCTGGGAT
TAACTACAAAAACTTTGATGAGCTGTGCCACAATGATCAAGCCATTAAGGAGGTCCAGCAATCT
CTATCAAAG

Sequences
Splice junction sequence	AGAGCAGTGGGCTCAAAATTCTGGGATTAACTACAAAAACTTTGATGAGCTGTGCCACAATGAT CAAGCCATTAAGGAGGTCCAGCAATCTCTATCAAAGctcgtttcatgggaagaaggtggctata aaatttctgattctccaatgccccgaggagaggttgtagttggtggatacagcataacaaaagg ttatttca
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: 474 Transcript exons: 14699111-14699242,14699321-14699455,14699553-14699759 CTCGTTTCATGGGAAGAAGGTGGCTATAAAATTTCTGATTCTCCAATGCCCCGAGGAGAGGTTG TAGTTGGTGGATACAGCATAACAAAAGGTTATTTCAACAATGAAGCAAAAACAAATGAGGTCTA CAAGGTAGATGAGAGGGGAATGCGCTGGTTTTACACTGGAGATATTGGCCAGTTCCATCCTGAT GGGTGCCTCGAGATCATTGATAGAAAAAAGGATATAGTAAAACTTCAGCATGGAGAATATGTGT CTCTTGGCAAGGTTGAATCAGCTCTAACTACTAGCAATTATGTGGACAGCATAATGGTTTATGC TGATCCATTTCATAATTATTGTGTGGCGTTGGTAGTGCCGGCGCACCAGGCCTTAGAGCAGTGG GCTCAAAATTCTGGGATTAACTACAAAAACTTTGATGAGCTGTGCCACAATGATCAAGCCATTA AGGAGGTCCAGCAATCTCTATCAAAG
Genomic sequence	CTCGTTTCATGGGAAGAAGGTGGCTATAAAATTTCTGATTCTCCAATGCCCCGAGGAGAGGTTG TAGTTGGTGGATACAGCATAACAAAAGGTTATTTCAACAATGAAGCAAAAACAAATGAGGTCTA CAAGGTAAAGGATCTTTGCCAATCATCCTTGGTGGTCAAATACAATATTTTTCACTTCAATTTT TGTTTCTGATTACTCCAGGTAGATGAGAGGGGAATGCGCTGGTTTTACACTGGAGATATTGGCC AGTTCCATCCTGATGGGTGCCTCGAGATCATTGATAGAAAAAAGGATATAGTAAAACTTCAGCA TGGAGAATATGTGTCTCTTGGCAAGGTTTGGTTACAATAGTGCCTCAACCATTATGGGTATTCT TTTTGTATTATAATTATATTAAACCCCCTCTCTCTCTCGTTCTCTCTGGCCTTTACAGGTTGAA TCAGCTCTAACTACTAGCAATTATGTGGACAGCATAATGGTTTATGCTGATCCATTTCATAATT ATTGTGTGGCGTTGGTAGTGCCGGCGCACCAGGCCTTAGAGCAGTGGGCTCAAAATTCTGGGAT TAACTACAAAAACTTTGATGAGCTGTGCCACAATGATCAAGCCATTAAGGAGGTCCAGCAATCT CTATCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015317 						
					
						PMCS
						0.287671341

Conservation Information
Conserved circRNAs	osi_circ_015317
PMCS	0.287671341

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14699157-14699756(+)
14699705-14699174(+)
						
						Potential amino acid sequence
						
							MPRGEVVVGGYSITKGYFNNEAKTNEVYKVDERGMRWFYTGDIGQFHPDGCLEIIDRKKDIVKL
QHGEYVSLGKVESALTTSNYVDSIMVYADPFHNYCVALVVPAHQALEQWAQNSGINYKNFDELC
HNDQAIKEVQQSLSKLVSWEEGGYKISDSPMPRGEVVVGGYSITKGYFNNEAKTNEVYKVDERG
MRWFYTGDIGQFHPDGCLEIIDRKKDIVKLQHGEYVSLGKVESALTTSNYVDSIMVYADPFHNY
CVALVVPAHQALEQWAQNSGINYKNFDELCHNDQAIKEVQQSLSKLVSWEEGGYKISDSPMPRG
EVVVGGYSITKGYFNNEAKTNEVYKVDERGMRWFYTGDIGQFHPDGCLEIIDRKKDIVKLQHGE
YVSLGKVESALTTSNYVDSIMVYADPFHNYCVALVVPAHQALEQWAQNSGINYKNFDELCHNDQ
AIKEVQQSLSKLVSWEEGGYKISDSPMPRGEVVVGGYSITKGYFNNEAKTNEVYKVDERGMRWF
YTGDIGQFHPDGCLEIIDRKKDIVKLQHGEYVSLGKVESALTTSNYVDSIMVYADPFHNYCVAL
VVPAHQALEQWAQNSGINYKNFDELCHNDQAIKEVQQSLSK(+)
MSCATMIKPLRRSSNLYQSSFHGKKVAIKFLILQCPEERL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14699157-14699756(+) 14699705-14699174(+)
Potential amino acid sequence	MPRGEVVVGGYSITKGYFNNEAKTNEVYKVDERGMRWFYTGDIGQFHPDGCLEIIDRKKDIVKL QHGEYVSLGKVESALTTSNYVDSIMVYADPFHNYCVALVVPAHQALEQWAQNSGINYKNFDELC HNDQAIKEVQQSLSKLVSWEEGGYKISDSPMPRGEVVVGGYSITKGYFNNEAKTNEVYKVDERG MRWFYTGDIGQFHPDGCLEIIDRKKDIVKLQHGEYVSLGKVESALTTSNYVDSIMVYADPFHNY CVALVVPAHQALEQWAQNSGINYKNFDELCHNDQAIKEVQQSLSKLVSWEEGGYKISDSPMPRG EVVVGGYSITKGYFNNEAKTNEVYKVDERGMRWFYTGDIGQFHPDGCLEIIDRKKDIVKLQHGE YVSLGKVESALTTSNYVDSIMVYADPFHNYCVALVVPAHQALEQWAQNSGINYKNFDELCHNDQ AIKEVQQSLSKLVSWEEGGYKISDSPMPRGEVVVGGYSITKGYFNNEAKTNEVYKVDERGMRWF YTGDIGQFHPDGCLEIIDRKKDIVKLQHGEYVSLGKVESALTTSNYVDSIMVYADPFHNYCVAL VVPAHQALEQWAQNSGINYKNFDELCHNDQAIKEVQQSLSK(+) MSCATMIKPLRRSSNLYQSSFHGKKVAIKFLILQCPEERL*(+)
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 Os05g0317200_circ_g.11

Address

Any questions?

Supported by