Plant Circular RNA Database

Detail information of Os12g0291000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os12g0291000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_011172
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 11245395-11246031  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os12g0291000						
					
						Parent gene annotation
						
							Similar to DNA-directed DNA polymerase family protein. (Os12t029
1000-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os12g0291000_circ_g.1 						
					
						Support reads
						2
					
						Tissues
						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  
						
							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
						Os12t0291000-00:3

General Information
CircRNA Name	Os12g0291000_circ_g.2
ID in PlantcircBase	osa_circ_011172
Alias	NA
Organism	Oryza sativa
Position	chr12: 11245395-11246031 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os12g0291000
Parent gene annotation	Similar to DNA-directed DNA polymerase family protein. (Os12t029 1000-00)
Parent gene strand	+
Alternative splicing	Os12g0291000_circ_g.1
Support reads	2
Tissues	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	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	Os12t0291000-00:3

			
						 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  
						
							TGTATGTACCATAGAGAAGGCCAATTCTTTGGTAAACAAGTTGTTGGAGGAAGGCCGTCTTTCT
GAACTTGGCATAATAGTAATAGATGAGCTTCATATGgtggaatgtttacttgtggaaggtgtct
tggagaaacgcaatcttgtttattgtgcatctacaaggtactgggagatcttgcactcttccct
gttgattg

						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: 372
Transcript exons: 11245395-11245459,11245644-11245749,11245831-11246031
GTGGAATGTTTACTTGTGGAAGGTGTCTTGGAGAAACGCAATCTTGTTTATTGTGCATCTACAA
GTGCTGGTAAAAGTTTTGTTGCTGAAATTCTAATGTTGAGACGGATATTGTTCAGTGGAAAGAT
GGCAATCCTTGTACTTCCCTATGTGTCAATATGTGCTGAAAAGGCTGAACATCTTGAGCAACTT
CTTGAGCCGCTAGGCAGACATGTTCGAAGCTTCTATGGAAATCAGGGGGGAGGGTCACTTCCTA
AGGATACATCAGTTGCTGTATGTACCATAGAGAAGGCCAATTCTTTGGTAAACAAGTTGTTGGA
GGAAGGCCGTCTTTCTGAACTTGGCATAATAGTAATAGATGAGCTTCATATG
						
						Genomic sequence
						
							GTGGAATGTTTACTTGTGGAAGGTGTCTTGGAGAAACGCAATCTTGTTTATTGTGCATCTACAA
GGTACTGGGAGATCTTGCACTCTTCCCTGTTGATTGATAATCTCAGTATCCCCATGATTCAGCC
CTTTTTGTATAAGTTATTTTTAAACTTGTTTCTTTTGTTTGAAATGCATACTTCTCCAGATACC
ACCTTCGAGTTTTTATTAGTATATTCATAAAAATAATTCCTATTTCATATATTACAGTGCTGGT
AAAAGTTTTGTTGCTGAAATTCTAATGTTGAGACGGATATTGTTCAGTGGAAAGATGGCAATCC
TTGTACTTCCCTATGTGTCAATATGTGCTGAAAAGGTTCTGCCATATTTTACTAAGCTTACCTT
TTGAATGTTTCAGCATGCTTGTATTGGGTTGTATAACTAGTATTTTTTTTAGGCTGAACATCTT
GAGCAACTTCTTGAGCCGCTAGGCAGACATGTTCGAAGCTTCTATGGAAATCAGGGGGGAGGGT
CACTTCCTAAGGATACATCAGTTGCTGTATGTACCATAGAGAAGGCCAATTCTTTGGTAAACAA
GTTGTTGGAGGAAGGCCGTCTTTCTGAACTTGGCATAATAGTAATAGATGAGCTTCATATG

Sequences
Splice junction sequence	TGTATGTACCATAGAGAAGGCCAATTCTTTGGTAAACAAGTTGTTGGAGGAAGGCCGTCTTTCT GAACTTGGCATAATAGTAATAGATGAGCTTCATATGgtggaatgtttacttgtggaaggtgtct tggagaaacgcaatcttgtttattgtgcatctacaaggtactgggagatcttgcactcttccct gttgattg
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: 372 Transcript exons: 11245395-11245459,11245644-11245749,11245831-11246031 GTGGAATGTTTACTTGTGGAAGGTGTCTTGGAGAAACGCAATCTTGTTTATTGTGCATCTACAA GTGCTGGTAAAAGTTTTGTTGCTGAAATTCTAATGTTGAGACGGATATTGTTCAGTGGAAAGAT GGCAATCCTTGTACTTCCCTATGTGTCAATATGTGCTGAAAAGGCTGAACATCTTGAGCAACTT CTTGAGCCGCTAGGCAGACATGTTCGAAGCTTCTATGGAAATCAGGGGGGAGGGTCACTTCCTA AGGATACATCAGTTGCTGTATGTACCATAGAGAAGGCCAATTCTTTGGTAAACAAGTTGTTGGA GGAAGGCCGTCTTTCTGAACTTGGCATAATAGTAATAGATGAGCTTCATATG
Genomic sequence	GTGGAATGTTTACTTGTGGAAGGTGTCTTGGAGAAACGCAATCTTGTTTATTGTGCATCTACAA GGTACTGGGAGATCTTGCACTCTTCCCTGTTGATTGATAATCTCAGTATCCCCATGATTCAGCC CTTTTTGTATAAGTTATTTTTAAACTTGTTTCTTTTGTTTGAAATGCATACTTCTCCAGATACC ACCTTCGAGTTTTTATTAGTATATTCATAAAAATAATTCCTATTTCATATATTACAGTGCTGGT AAAAGTTTTGTTGCTGAAATTCTAATGTTGAGACGGATATTGTTCAGTGGAAAGATGGCAATCC TTGTACTTCCCTATGTGTCAATATGTGCTGAAAAGGTTCTGCCATATTTTACTAAGCTTACCTT TTGAATGTTTCAGCATGCTTGTATTGGGTTGTATAACTAGTATTTTTTTTAGGCTGAACATCTT GAGCAACTTCTTGAGCCGCTAGGCAGACATGTTCGAAGCTTCTATGGAAATCAGGGGGGAGGGT CACTTCCTAAGGATACATCAGTTGCTGTATGTACCATAGAGAAGGCCAATTCTTTGGTAAACAA GTTGTTGGAGGAAGGCCGTCTTTCTGAACTTGGCATAATAGTAATAGATGAGCTTCATATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_010427 						
					
						PMCS
						0.372679435

Conservation Information
Conserved circRNAs	osi_circ_010427
PMCS	0.372679435

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11245676-11246028(+)
11246019-11245672(+)
11245454-11245915(-)
						
						Potential amino acid sequence
						
							MLRRILFSGKMAILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIE
KANSLVNKLLEEGRLSELGIIVIDELHMVECLLVEGVLEKRNLVYCASTSAGKSFVAEILMLRR
ILFSGKMAILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIEKANS
LVNKLLEEGRLSELGIIVIDELHMVECLLVEGVLEKRNLVYCASTSAGKSFVAEILMLRRILFS
GKMAILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIEKANSLVNK
LLEEGRLSELGIIVIDELHMVECLLVEGVLEKRNLVYCASTSAGKSFVAEILMLRRILFSGKMA
ILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIEKANSLVNKLLEE
GRLSELGIIVIDELHM(+)
MSFIWWNVYLWKVSWRNAILFIVHLQVLVKVLLLKF*(+)
MHNKQDCVSPRHLPQVNIPPYEAHLLLLCQVQKDGLPPTTCLPKNWPSLWYIQQLMYP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11245676-11246028(+) 11246019-11245672(+) 11245454-11245915(-)
Potential amino acid sequence	MLRRILFSGKMAILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIE KANSLVNKLLEEGRLSELGIIVIDELHMVECLLVEGVLEKRNLVYCASTSAGKSFVAEILMLRR ILFSGKMAILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIEKANS LVNKLLEEGRLSELGIIVIDELHMVECLLVEGVLEKRNLVYCASTSAGKSFVAEILMLRRILFS GKMAILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIEKANSLVNK LLEEGRLSELGIIVIDELHMVECLLVEGVLEKRNLVYCASTSAGKSFVAEILMLRRILFSGKMA ILVLPYVSICAEKAEHLEQLLEPLGRHVRSFYGNQGGGSLPKDTSVAVCTIEKANSLVNKLLEE GRLSELGIIVIDELHM(+) MSFIWWNVYLWKVSWRNAILFIVHLQVLVKVLLLKF(+) MHNKQDCVSPRHLPQVNIPPYEAHLLLLCQVQKDGLPPTTCLPKNWPSLWYIQQLMYP(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os12g0291000_circ_g.2

Address

Any questions?

Supported by