Plant Circular RNA Database

Detail information of Os07g0270900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0270900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_033375
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 9973676-9974764  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0270900						
					
						Parent gene annotation
						
							Mak16 protein family protein. (Os07t0270900-01);Mak16 protein fa
mily protein. (Os07t0270900-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0270900_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
						Os07t0270900-01:2
Os07t0270900-02:2

General Information
CircRNA Name	Os07g0270900_circ_g.2
ID in PlantcircBase	osa_circ_033375
Alias	NA
Organism	Oryza sativa
Position	chr7: 9973676-9974764 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0270900
Parent gene annotation	Mak16 protein family protein. (Os07t0270900-01);Mak16 protein fa mily protein. (Os07t0270900-02)
Parent gene strand	+
Alternative splicing	Os07g0270900_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	Os07t0270900-01:2 Os07t0270900-02:2

			
						 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  
						
							TCCCCTTATCAGAGAGAAGGTGATGACAATGCCCAGGAAGGAGACTCAGCGCCATCTCAGAAGA
ATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAAGgaattttggcccaagttacttgtgcaca
aaattaagcagcgcctgacaaaaatgactcagtatcggataagaatgaggaagcttcaactgaa
agtgaggt

									
								

					

						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: 127
Transcript exons: 9973676-9973741,9974704-9974764
GAATTTTGGCCCAAGTTACTTGTGCACAAAATTAAGCAGCGCCTGACAAAAATGACTCAGTATC
GGGGAGACTCAGCGCCATCTCAGAAGAATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAAG
Transcript length: 186
Transcript exons: 9973676-9973773,9974677-9974764
GAATTTTGGCCCAAGTTACTTGTGCACAAAATTAAGCAGCGCCTGACAAAAATGACTCAGTATC
GGATAAGAATGAGGAAGCTTCAACTGAAAGTGAGAGAGAAGGTGATGACAATGCCCAGGAAGGA
GACTCAGCGCCATCTCAGAAGAATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAAG
						
					

						Genomic sequence
						
							GAATTTTGGCCCAAGTTACTTGTGCACAAAATTAAGCAGCGCCTGACAAAAATGACTCAGTATC
GGATAAGAATGAGGAAGCTTCAACTGAAAGTGAGGTAGGCTCTTAGGTTTATTTCCATAGTGTT
TTCATTATGGTCTTAAGCTGAACACGATAAAATTCTATTAGAGTGCTGAACTCATCAGGTTGAA
AATCTTAAATCTGGGACAACTGTTCTGAGATACATGCCATGTGGGAAGATGGTTGCTGAAGTAC
TTACCTGTTTAGCATGTTTTGGTTGCAAAGGGCATTGTTCCTTTTTACTTGTTTGTTGTTTTAC
TTTTCTGTCTTCAAGATGTGACTTTGACCATTTATTTTTATACTTTTGCATTAAGTATAATAAT
AAAATTATATTATTATGAAAGTATTCCTAATTACAAATTTAATGATGTGATTTTCAGTAGTTCC
AAATATATTAGCAGTAAAACTTTTGAAAGGTTGAAGATGCGGATTGTAGGGTGTCATTAAAAAA
GAAACATAGTAGTATAAAGTAACAGATTTCTGTAGATTGAACTCTATTGATTTATAGGTTTGCT
TTTAGATGGGGGTGGGGATCCGATTTTGGTTGATTGTCTTATAGGCATTCTATGTATTTCATAC
TGCCACAACCAGCGCTACTGTCAGTGCCAAATTGTGTACTAGGATTTAAGAATAAGAACTGGCT
CAGTGTTTGGTTATATTCAATTACAGAATTTTGAAGTTGCACATTTTGTTGACTTGTTCTATGG
TCTTAAGATTGTATTAGATGCACTGTGTTCACATTGTTGCAGAACTTTTTAAAACTAATGGAAA
AAATAATAATGGTAGCAATATCTCACAAGTTTCTACTTTGGTGGTATAATTTAGTGTAATAGTT
TCATTATAATCTGATTTGCTTGTTGATGTATACTCTTTTTGTGAACTTTCTGCTGTTCTCTCTG
ATGCAATGGAAAGATTAATCATATTCCTCTCCCCTTATCAGAGAGAAGGTGATGACAATGCCCA
GGAAGGAGACTCAGCGCCATCTCAGAAGAATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAA
G
						
					

			
		

Sequences
Splice junction sequence	TCCCCTTATCAGAGAGAAGGTGATGACAATGCCCAGGAAGGAGACTCAGCGCCATCTCAGAAGA ATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAAGgaattttggcccaagttacttgtgcaca aaattaagcagcgcctgacaaaaatgactcagtatcggataagaatgaggaagcttcaactgaa agtgaggt
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: 127 Transcript exons: 9973676-9973741,9974704-9974764 GAATTTTGGCCCAAGTTACTTGTGCACAAAATTAAGCAGCGCCTGACAAAAATGACTCAGTATC GGGGAGACTCAGCGCCATCTCAGAAGAATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAAG Transcript length: 186 Transcript exons: 9973676-9973773,9974677-9974764 GAATTTTGGCCCAAGTTACTTGTGCACAAAATTAAGCAGCGCCTGACAAAAATGACTCAGTATC GGATAAGAATGAGGAAGCTTCAACTGAAAGTGAGAGAGAAGGTGATGACAATGCCCAGGAAGGA GACTCAGCGCCATCTCAGAAGAATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAAG
Genomic sequence	GAATTTTGGCCCAAGTTACTTGTGCACAAAATTAAGCAGCGCCTGACAAAAATGACTCAGTATC GGATAAGAATGAGGAAGCTTCAACTGAAAGTGAGGTAGGCTCTTAGGTTTATTTCCATAGTGTT TTCATTATGGTCTTAAGCTGAACACGATAAAATTCTATTAGAGTGCTGAACTCATCAGGTTGAA AATCTTAAATCTGGGACAACTGTTCTGAGATACATGCCATGTGGGAAGATGGTTGCTGAAGTAC TTACCTGTTTAGCATGTTTTGGTTGCAAAGGGCATTGTTCCTTTTTACTTGTTTGTTGTTTTAC TTTTCTGTCTTCAAGATGTGACTTTGACCATTTATTTTTATACTTTTGCATTAAGTATAATAAT AAAATTATATTATTATGAAAGTATTCCTAATTACAAATTTAATGATGTGATTTTCAGTAGTTCC AAATATATTAGCAGTAAAACTTTTGAAAGGTTGAAGATGCGGATTGTAGGGTGTCATTAAAAAA GAAACATAGTAGTATAAAGTAACAGATTTCTGTAGATTGAACTCTATTGATTTATAGGTTTGCT TTTAGATGGGGGTGGGGATCCGATTTTGGTTGATTGTCTTATAGGCATTCTATGTATTTCATAC TGCCACAACCAGCGCTACTGTCAGTGCCAAATTGTGTACTAGGATTTAAGAATAAGAACTGGCT CAGTGTTTGGTTATATTCAATTACAGAATTTTGAAGTTGCACATTTTGTTGACTTGTTCTATGG TCTTAAGATTGTATTAGATGCACTGTGTTCACATTGTTGCAGAACTTTTTAAAACTAATGGAAA AAATAATAATGGTAGCAATATCTCACAAGTTTCTACTTTGGTGGTATAATTTAGTGTAATAGTT TCATTATAATCTGATTTGCTTGTTGATGTATACTCTTTTTGTGAACTTTCTGCTGTTCTCTCTG ATGCAATGGAAAGATTAATCATATTCCTCTCCCCTTATCAGAGAGAAGGTGATGACAATGCCCA GGAAGGAGACTCAGCGCCATCTCAGAAGAATGGATAAAGCTGAAAAGGCCGCTCAGTTGGAAAA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_017699 						
					
						PMCS
						0.331265496

Conservation Information
Conserved circRNAs	osi_circ_017699
PMCS	0.331265496

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							9973728-9974761(+)
						
						Potential amino acid sequence
						
							MTQYRIRMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEKEFWPKLLVHKIKQRLTKMT
QYRIRMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEKEFWPKLLVHKIKQRLTKMTQY
RIRMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEKEFWPKLLVHKIKQRLTKMTQYRI
RMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	9973728-9974761(+)
Potential amino acid sequence	MTQYRIRMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEKEFWPKLLVHKIKQRLTKMT QYRIRMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEKEFWPKLLVHKIKQRLTKMTQY RIRMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEKEFWPKLLVHKIKQRLTKMTQYRI RMRKLQLKVREKVMTMPRKETQRHLRRMDKAEKAAQLEK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0270900_circ_g.2

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