Plant Circular RNA Database

Detail information of Os12g0152700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os12g0152700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_010498
					
						Alias
						Os12circ00529/Os_ciR2163
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr12: 2597049-2598148  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os12g0152700						
					
						Parent gene annotation
						
							Amino acid-binding ACT domain containing protein. (Os12t0152700-
01);Similar to ACT domain containing protein. (Os12t0152700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os12g0152700_circ_g.2 						
					
						Support reads
						3/6/30
					
						Tissues
						leaf/root/root, seed, pistil
					
						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
						Os12t0152700-01:5
Os12t0152700-02:5

General Information
CircRNA Name	Os12g0152700_circ_g.1
ID in PlantcircBase	osa_circ_010498
Alias	Os12circ00529/Os_ciR2163
Organism	Oryza sativa
Position	chr12: 2597049-2598148 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, KNIFE, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os12g0152700
Parent gene annotation	Amino acid-binding ACT domain containing protein. (Os12t0152700- 01);Similar to ACT domain containing protein. (Os12t0152700-02)
Parent gene strand	-
Alternative splicing	Os12g0152700_circ_g.2
Support reads	3/6/30
Tissues	leaf/root/root, seed, pistil
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	Os12t0152700-01:5 Os12t0152700-02:5

			
						 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  
						
							CCCCCAGACGGTCTCCAAAACTCAGCTGCACTATGGTTGCATCACGGTCTGAGTCTTGATCTAT
CAGAACAACTGGCTGTGGAATTGCATCATCAGATGTcttcttttaggtccatcatcttcaacaa
ttacatgtgttacaacatcaacatcaacctgagagtttaaagaacaaataaatcacgttcatgc
taaagtta

									
								

					

						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: 404
Transcript exons: 2597049-2597104,2597306-2597365,2597494-2597572,2597820-
2597914,2598035-2598148
CTTCTTTTAGGTCCATCATCTTCAACAATTACATGTGTTACAACATCAACATCAACCTTCTTCT
CAGGAGCTTTTATTCCAAAAAATTCACCCATGGCTAAATTCTCACTTGATTCAGGATGATACTG
CAGAAGGTTGTTAATAACTGTTAGCCGTATCTTTTCCAATGTGTCAGGGTCCTCAACTTTGCGC
CCCGATCGCATGATGTGGAACTTTGTTTGTGTGACAGCTGATTCAGTTGACACACTTCCTTTCG
TCACATCAAGGCCCAGGTCCTTGAGTGCCTTCATCGTGTCAAGTAGTGCCCCCAGACGGTCTCC
AAAACTCAGCTGCACTATGGTTGCATCACGGTCTGAGTCTTGATCTATCAGAACAACTGGCTGT
GGAATTGCATCATCAGATGT
						
					

						Genomic sequence
						
							CTTCTTTTAGGTCCATCATCTTCAACAATTACATGTGTTACAACATCAACATCAACCTGAGAGT
TTAAAGAACAAATAAATCACGTTCATGCTAAAGTTAATGGAATACAAAATTAACAGCATAACAA
AACACTCAGGAACCTAACTTTTTTACTGTGTTAAAATTGAGGAAAACACACAACTTTAAAATTG
AGAAGATGCTTGATAACAGAGCATGGGTGGTGAACAAGCAGAATGAGAACATCCAATGAACTCA
CCTTCTTCTCAGGAGCTTTTATTCCAAAAAATTCACCCATGGCTAAATTCTCACTTGATTCCTA
CATGCATATCAACCAGACAAATGAGTTAGTTTGATACTTTGATTCATAAAAACAAGAACGGATC
CAAAATTACTAACGGTAGAAGTTCTAAACACAAGTAAAAGGATGTGACGCTCGGAACATACAGG
ATGATACTGCAGAAGGTTGTTAATAACTGTTAGCCGTATCTTTTCCAATGTGTCAGGGTCCTCA
ACTTTGCGCCCCCTAGATACAGACAGAAGAGGGGGAAAAAGATAATATTAGACATGAAATTATC
CAAATCACCAAAACAATATAAGAAGCATGATAGTTGCTAAATGTTTTAATCTCGTATTGTGTTT
AGTGCACATGTAAACTATTAGTATGGTACTTTGATAAATATGTGGATTCAATGAGAAAATACAC
CCTCTACTTCAAATATAAACTAAACAGCATGACAAAATGCAGCACACAGAAAGTGGCGTGCACC
CACGATCGCATGATGTGGAACTTTGTTTGTGTGACAGCTGATTCAGTTGACACACTTCCTTTCG
TCACATCAAGGCCCAGGTCCTTGAGTGCCTTCATCTGCAAACAGTGAATACCAGGACAAAATAA
TTTACTGATACAACAAAAATTACTAATTACGAAATATATCTTAAACAAGATCAGATCAAATAGA
GCACCCATAGCATAGGAAAATTATACCGTGTCAAGTAGTGCCCCCAGACGGTCTCCAAAACTCA
GCTGCACTATGGTTGCATCACGGTCTGAGTCTTGATCTATCAGAACAACTGGCTGTGGAATTGC
ATCATCAGATGT
						
					

			
		

Sequences
Splice junction sequence	CCCCCAGACGGTCTCCAAAACTCAGCTGCACTATGGTTGCATCACGGTCTGAGTCTTGATCTAT CAGAACAACTGGCTGTGGAATTGCATCATCAGATGTcttcttttaggtccatcatcttcaacaa ttacatgtgttacaacatcaacatcaacctgagagtttaaagaacaaataaatcacgttcatgc taaagtta
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: 404 Transcript exons: 2597049-2597104,2597306-2597365,2597494-2597572,2597820- 2597914,2598035-2598148 CTTCTTTTAGGTCCATCATCTTCAACAATTACATGTGTTACAACATCAACATCAACCTTCTTCT CAGGAGCTTTTATTCCAAAAAATTCACCCATGGCTAAATTCTCACTTGATTCAGGATGATACTG CAGAAGGTTGTTAATAACTGTTAGCCGTATCTTTTCCAATGTGTCAGGGTCCTCAACTTTGCGC CCCGATCGCATGATGTGGAACTTTGTTTGTGTGACAGCTGATTCAGTTGACACACTTCCTTTCG TCACATCAAGGCCCAGGTCCTTGAGTGCCTTCATCGTGTCAAGTAGTGCCCCCAGACGGTCTCC AAAACTCAGCTGCACTATGGTTGCATCACGGTCTGAGTCTTGATCTATCAGAACAACTGGCTGT GGAATTGCATCATCAGATGT
Genomic sequence	CTTCTTTTAGGTCCATCATCTTCAACAATTACATGTGTTACAACATCAACATCAACCTGAGAGT TTAAAGAACAAATAAATCACGTTCATGCTAAAGTTAATGGAATACAAAATTAACAGCATAACAA AACACTCAGGAACCTAACTTTTTTACTGTGTTAAAATTGAGGAAAACACACAACTTTAAAATTG AGAAGATGCTTGATAACAGAGCATGGGTGGTGAACAAGCAGAATGAGAACATCCAATGAACTCA CCTTCTTCTCAGGAGCTTTTATTCCAAAAAATTCACCCATGGCTAAATTCTCACTTGATTCCTA CATGCATATCAACCAGACAAATGAGTTAGTTTGATACTTTGATTCATAAAAACAAGAACGGATC CAAAATTACTAACGGTAGAAGTTCTAAACACAAGTAAAAGGATGTGACGCTCGGAACATACAGG ATGATACTGCAGAAGGTTGTTAATAACTGTTAGCCGTATCTTTTCCAATGTGTCAGGGTCCTCA ACTTTGCGCCCCCTAGATACAGACAGAAGAGGGGGAAAAAGATAATATTAGACATGAAATTATC CAAATCACCAAAACAATATAAGAAGCATGATAGTTGCTAAATGTTTTAATCTCGTATTGTGTTT AGTGCACATGTAAACTATTAGTATGGTACTTTGATAAATATGTGGATTCAATGAGAAAATACAC CCTCTACTTCAAATATAAACTAAACAGCATGACAAAATGCAGCACACAGAAAGTGGCGTGCACC CACGATCGCATGATGTGGAACTTTGTTTGTGTGACAGCTGATTCAGTTGACACACTTCCTTTCG TCACATCAAGGCCCAGGTCCTTGAGTGCCTTCATCTGCAAACAGTGAATACCAGGACAAAATAA TTTACTGATACAACAAAAATTACTAATTACGAAATATATCTTAAACAAGATCAGATCAAATAGA GCACCCATAGCATAGGAAAATTATACCGTGTCAAGTAGTGCCCCCAGACGGTCTCCAAAACTCA GCTGCACTATGGTTGCATCACGGTCTGAGTCTTGATCTATCAGAACAACTGGCTGTGGAATTGC ATCATCAGATGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_003291* osi_circ_010064 						
					
						PMCS
						0.174909652

Conservation Information
Conserved circRNAs	osi_circ_003291* osi_circ_010064
PMCS	0.174909652

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2598146-2597347(+)
2597916-2598114(-)
						
						Potential amino acid sequence
						
							MSSFRSIIFNNYMCYNININLLLRSFYSKKFTHG*(+)
MKALKDLGLDVTKGSVSTESAVTQTKFHIMRSGRKVEDPDTLEKIRLTVINNLLQYHPESSENL
AMGEFFGIKAPEKKVDVDVVTHVIVEDDGPKRRHLMMQFHSQLF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2598146-2597347(+) 2597916-2598114(-)
Potential amino acid sequence	MSSFRSIIFNNYMCYNININLLLRSFYSKKFTHG(+) MKALKDLGLDVTKGSVSTESAVTQTKFHIMRSGRKVEDPDTLEKIRLTVINNLLQYHPESSENL AMGEFFGIKAPEKKVDVDVVTHVIVEDDGPKRRHLMMQFHSQLF(-)
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 Os12g0152700_circ_g.1

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