Plant Circular RNA Database

Detail information of Os10g0466300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os10g0466300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_007047
					
						Alias
						Os_ciR6779
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr10: 17204554-17206065  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os10g0466300						
					
						Parent gene annotation
						
							Similar to Yarrowia lipolytica chromosome C of strain CLIB99 of 
Yarrowia lipolytica. (Os10t0466300-01);Similar to Yarrowia lipol
ytica chromosome C of strain CLIB99 of Yarrowia lipolytica. (Os1
0t0466300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os10g0466300_circ_g.2 Os10g0466300_circ_g.3 Os10g0466300_circ_g.4 						
					
						Support reads
						2/1
					
						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  
						
							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
						Os10t0466300-01:5
Os10t0466300-02:5

General Information
CircRNA Name	Os10g0466300_circ_g.1
ID in PlantcircBase	osa_circ_007047
Alias	Os_ciR6779
Organism	Oryza sativa
Position	chr10: 17204554-17206065 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os10g0466300
Parent gene annotation	Similar to Yarrowia lipolytica chromosome C of strain CLIB99 of Yarrowia lipolytica. (Os10t0466300-01);Similar to Yarrowia lipol ytica chromosome C of strain CLIB99 of Yarrowia lipolytica. (Os1 0t0466300-02)
Parent gene strand	-
Alternative splicing	Os10g0466300_circ_g.2 Os10g0466300_circ_g.3 Os10g0466300_circ_g.4
Support reads	2/1
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	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	Os10t0466300-01:5 Os10t0466300-02:5

			
						 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  
						
							GAAGAATATCCACGCAATTGCTAACCTCGGCAGTGTGATCTTTCAATGTATGGATGCAATTGTA
ATTTCCCTCCTCGCTTCCTTGCCAAATTTTAACAGTcagaatttgttggcgtgtctgagtcata
aggtgatatcgtcctaaagtttcttaattttcgaagatcccaaagcttgactccatcgagagca
gcagtctg

									
								

					

						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: 472
Transcript exons: 17204554-17204650,17204729-17204806,17204903-17205019,17
205137-17205241,17205991-17206065
CAGAATTTGTTGGCGTGTCTGAGTCATAAGGTGATATCGTCCTAAAGTTTCTTAATTTTCGAAG
ATCCCAAAGCTTGACTCCATCGAGAGCAGCAGTCGCAAGGAAGTAACCATTTTCAGAGAAGGAC
ATAGCAGTCACTGGTCCAACATGCCCCTCAAACTTTGCAACATTTGACTGCGTCTTCACATCCC
AAATTTTGACAACAGCTTCAGTGGTCCCTGTCCCCAGGATAAGACCATCTGGGTGGAAAGATGC
AGATGTATATCCCTCTTGTCCTGAAGACTCGCCAACCTGTGTGAGGCAAGATCCTGATGGAATA
TCGTAGAAGCACCAAGTATTATCCTTGGAAGCAGTCACAAAGTACTTCTGAGTCGCATGGACTG
TAACAGCTTCAACCTCGGCAGTGTGATCTTTCAATGTATGGATGCAATTGTAATTTCCCTCCTC
GCTTCCTTGCCAAATTTTAACAGT
						
					

						Genomic sequence
						
							CAGAATTTGTTGGCGTGTCTGAGTCATAAGGTGATATCGTCCTAAAGTTTCTTAATTTTCGAAG
ATCCCAAAGCTTGACTCCATCGAGAGCAGCAGTCTGTACAGTGATGATACATATATCAGAATAA
AAAAGAAATTCAACATTTTGCAGATTGCACTATGGAGAGATTCATACCGCAAGGAAGTAACCAT
TTTCAGAGAAGGACATAGCAGTCACTGGTCCAACATGCCCCTCAAACTTTGCAACATTTGACTA
GAGAAAAAAGATGATTGTTAGCAAGGTATTTCAAGAGCAGACATGCATGAACACCTGAAAAAAG
AACTTGAATGAGTTGCCGGAGTATCACACCTGCGTCTTCACATCCCAAATTTTGACAACAGCTT
CAGTGGTCCCTGTCCCCAGGATAAGACCATCTGGGTGGAAAGATGCAGATGTATATCCCTCTTG
TCCTGAAGACTCGCCAACCTGAGTAAAGAAAAGGTATTCATTAACTCATAAACATCTTGGGAGC
TAACAGACAAAGCATGTATAAGTACATGGATGAATGGGAGCAGGTTACATGAGAAAGATAATGG
AGTAAACCTGTGTGAGGCAAGATCCTGATGGAATATCGTAGAAGCACCAAGTATTATCCTTGGA
AGCAGTCACAAAGTACTTCTGAGTCGCATGGACTGTAACAGCTTCAACCTGACAGATTTTTGTA
AAACAAATAAGTTTGAAACAATAGAATTTGAATTGAAACATTTTATATTACCAATTGAAATATT
ACAATATAAAATATGGTAAAAGTTGCCCTGTTTGATTTATATTACTGAGTTATTACCATGGATT
ATCTATATAAATTAAATATTTTTAAAAATAAACTCAATAAATAGCTTAAAATAAGTTATCTAAG
AAATGCAGCAAAAGAAATTTTTTTGAGAAGATGTATTTTCCAAAGTATATAGCAAATAATCCAT
TTCAATAATCCAGTGCAGAGAATAATCTGTAAAGAACAAGGGCCTTAAGGGCAATGATGGGGCA
TGTTCACATGTTTTGTAACTGTGAAGAGGGCCTTTAAGGACAATGGTGGGGCATTTTCACATGT
TTTGTAACTGTGAAACATGAATGGACCAGAGTAGCTAACGGTACAAATGATAAAGAAAATTTGA
TGAAAGAACTGCATTTGCAGTATGACTTGAGTTTTGAGTATCATAGCTCAACATGCCAAAATGT
GTTATAATCATATTTGTGACAAATCCTTGATAGATAGAAATTTCATAAATATTTTCAATTTTAC
TGTAACAGAAATTTAGAAGCCACAGAAAGGAAATATGACTGTATGCATGCAAGAAGAATACCAG
CTATCCAGCAATCTGTAATTCCAATATCCAAAAACATAAAATGGCAAAGAATGTGAAGTTATTT
TGCAGAAGAATATCCACGCAATTGCTAACCTCGGCAGTGTGATCTTTCAATGTATGGATGCAAT
TGTAATTTCCCTCCTCGCTTCCTTGCCAAATTTTAACAGT
						
					

			
		

Sequences
Splice junction sequence	GAAGAATATCCACGCAATTGCTAACCTCGGCAGTGTGATCTTTCAATGTATGGATGCAATTGTA ATTTCCCTCCTCGCTTCCTTGCCAAATTTTAACAGTcagaatttgttggcgtgtctgagtcata aggtgatatcgtcctaaagtttcttaattttcgaagatcccaaagcttgactccatcgagagca gcagtctg
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: 472 Transcript exons: 17204554-17204650,17204729-17204806,17204903-17205019,17 205137-17205241,17205991-17206065 CAGAATTTGTTGGCGTGTCTGAGTCATAAGGTGATATCGTCCTAAAGTTTCTTAATTTTCGAAG ATCCCAAAGCTTGACTCCATCGAGAGCAGCAGTCGCAAGGAAGTAACCATTTTCAGAGAAGGAC ATAGCAGTCACTGGTCCAACATGCCCCTCAAACTTTGCAACATTTGACTGCGTCTTCACATCCC AAATTTTGACAACAGCTTCAGTGGTCCCTGTCCCCAGGATAAGACCATCTGGGTGGAAAGATGC AGATGTATATCCCTCTTGTCCTGAAGACTCGCCAACCTGTGTGAGGCAAGATCCTGATGGAATA TCGTAGAAGCACCAAGTATTATCCTTGGAAGCAGTCACAAAGTACTTCTGAGTCGCATGGACTG TAACAGCTTCAACCTCGGCAGTGTGATCTTTCAATGTATGGATGCAATTGTAATTTCCCTCCTC GCTTCCTTGCCAAATTTTAACAGT
Genomic sequence	CAGAATTTGTTGGCGTGTCTGAGTCATAAGGTGATATCGTCCTAAAGTTTCTTAATTTTCGAAG ATCCCAAAGCTTGACTCCATCGAGAGCAGCAGTCTGTACAGTGATGATACATATATCAGAATAA AAAAGAAATTCAACATTTTGCAGATTGCACTATGGAGAGATTCATACCGCAAGGAAGTAACCAT TTTCAGAGAAGGACATAGCAGTCACTGGTCCAACATGCCCCTCAAACTTTGCAACATTTGACTA GAGAAAAAAGATGATTGTTAGCAAGGTATTTCAAGAGCAGACATGCATGAACACCTGAAAAAAG AACTTGAATGAGTTGCCGGAGTATCACACCTGCGTCTTCACATCCCAAATTTTGACAACAGCTT CAGTGGTCCCTGTCCCCAGGATAAGACCATCTGGGTGGAAAGATGCAGATGTATATCCCTCTTG TCCTGAAGACTCGCCAACCTGAGTAAAGAAAAGGTATTCATTAACTCATAAACATCTTGGGAGC TAACAGACAAAGCATGTATAAGTACATGGATGAATGGGAGCAGGTTACATGAGAAAGATAATGG AGTAAACCTGTGTGAGGCAAGATCCTGATGGAATATCGTAGAAGCACCAAGTATTATCCTTGGA AGCAGTCACAAAGTACTTCTGAGTCGCATGGACTGTAACAGCTTCAACCTGACAGATTTTTGTA AAACAAATAAGTTTGAAACAATAGAATTTGAATTGAAACATTTTATATTACCAATTGAAATATT ACAATATAAAATATGGTAAAAGTTGCCCTGTTTGATTTATATTACTGAGTTATTACCATGGATT ATCTATATAAATTAAATATTTTTAAAAATAAACTCAATAAATAGCTTAAAATAAGTTATCTAAG AAATGCAGCAAAAGAAATTTTTTTGAGAAGATGTATTTTCCAAAGTATATAGCAAATAATCCAT TTCAATAATCCAGTGCAGAGAATAATCTGTAAAGAACAAGGGCCTTAAGGGCAATGATGGGGCA TGTTCACATGTTTTGTAACTGTGAAGAGGGCCTTTAAGGACAATGGTGGGGCATTTTCACATGT TTTGTAACTGTGAAACATGAATGGACCAGAGTAGCTAACGGTACAAATGATAAAGAAAATTTGA TGAAAGAACTGCATTTGCAGTATGACTTGAGTTTTGAGTATCATAGCTCAACATGCCAAAATGT GTTATAATCATATTTGTGACAAATCCTTGATAGATAGAAATTTCATAAATATTTTCAATTTTAC TGTAACAGAAATTTAGAAGCCACAGAAAGGAAATATGACTGTATGCATGCAAGAAGAATACCAG CTATCCAGCAATCTGTAATTCCAATATCCAAAAACATAAAATGGCAAAGAATGTGAAGTTATTT TGCAGAAGAATATCCACGCAATTGCTAACCTCGGCAGTGTGATCTTTCAATGTATGGATGCAAT TGTAATTTCCCTCCTCGCTTCCTTGCCAAATTTTAACAGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.267925838

Conservation Information
Conserved circRNAs	NA
PMCS	0.267925838

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17205222-17204595(+)
17204763-17206060(-)
17204582-17206060(-)
						
						Potential amino acid sequence
						
							MDCNSFNLGSVIFQCMDAIVISLLASLPNFNSQNLLACLSHKVISS*(+)
MSFSENGYFLATAALDGVKLWDLRKLRNFRTISPYDSDTPTNSDC*(-)
MTQTRQQILTVKIWQGSEEGNYNCIHTLKDHTAEVEAVTVHATQKYFVTASKDNTWCFYDIPSG
SCLTQVGESSGQEGYTSASFHPDGLILGTGTTEAVVKIWDVKTQSNVAKFEGHVGPVTAMSFSE
NGYFLATAALDGVKLWDLRKLRNFRTISPYDSDTPTNSDC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	17205222-17204595(+) 17204763-17206060(-) 17204582-17206060(-)
Potential amino acid sequence	MDCNSFNLGSVIFQCMDAIVISLLASLPNFNSQNLLACLSHKVISS(+) MSFSENGYFLATAALDGVKLWDLRKLRNFRTISPYDSDTPTNSDC(-) MTQTRQQILTVKIWQGSEEGNYNCIHTLKDHTAEVEAVTVHATQKYFVTASKDNTWCFYDIPSG SCLTQVGESSGQEGYTSASFHPDGLILGTGTTEAVVKIWDVKTQSNVAKFEGHVGPVTAMSFSE NGYFLATAALDGVKLWDLRKLRNFRTISPYDSDTPTNSDC*(-)
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 Os10g0466300_circ_g.1

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