Plant Circular RNA Database

Detail information of Os01g0687700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0687700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_003348
					
						Alias
						Os_ciR853
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 28372247-28373673  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							Os01g0687700						
					
						Parent gene annotation
						
							Protein of unknown function DUF292, eukaryotic domain containing
 protein. (Os01t0687700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0687700_circ_g.1 						
					
						Support reads
						31/10
					
						Tissues
						root/shoot, root, seed
					
						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
						Os01t0687700-01:4

General Information
CircRNA Name	Os01g0687700_circ_g.2
ID in PlantcircBase	osa_circ_003348
Alias	Os_ciR853
Organism	Oryza sativa
Position	chr1: 28372247-28373673 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI, PcircRNA_finder, circRNA_finder, find_circ
Parent gene	Os01g0687700
Parent gene annotation	Protein of unknown function DUF292, eukaryotic domain containing protein. (Os01t0687700-01)
Parent gene strand	-
Alternative splicing	Os01g0687700_circ_g.1
Support reads	31/10
Tissues	root/shoot, root, seed
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	Os01t0687700-01:4

			
						 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  
						
							AAGATACTGAACCATCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGC
TTGATCCTCGAAATGACTAAATTCAAGCATGTTTTGcagcagatcttcgtatttcttgttaagc
tctgcttcagtattcgatgagtcccattcaaggccatactcttgagcaatagctttcagaacct
tcagcttt

									
								

					

						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: 188
Transcript exons: 28372247-28372376,28373616-28373673
CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA
TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA
GCCTCCCTCCTGTTGCGCAGCAGCTTGATCCTCGAAATGACTAAATTCAAGCATGTTTTG
Transcript length: 202
Transcript exons: 28372247-28372369,28373595-28373673
CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA
TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACGCGCA
TATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTGATCCTCGAAATGACTAAATTCAA
GCATGTTTTG
Transcript length: 219
Transcript exons: 28372247-28372380,28373589-28373673
CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA
TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA
GCTTCTCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTGATCCTC
GAAATGACTAAATTCAAGCATGTTTTG
Transcript length: 225
Transcript exons: 28372247-28372354,28373557-28373673
CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA
TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCGATTCCTGGCCTGTCTGAAG
ATACTGAACCATCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTG
ATCCTCGAAATGACTAAATTCAAGCATGTTTTG
Transcript length: 550
Transcript exons: 28372247-28372387,28372516-28372687,28372815-28372918,28
373541-28373673
CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA
TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA
GCTTCTCGATTATTGTACGATTAACACCGCTGTCAGGACGCAATTCCATAGCTGCAGCAACAAA
TTCCTTGCCATATTTGGTGGTGAACAAAGTACGGAGATGCATTAGCTCAGGCAAGTCTGAACAT
CTCCCTGATGCAAATATTATACTAGCTATTGCTTCCCGTAGTTCGAAGGGGCATTCCTTTTGGA
CCTCAACAATAGGGACCCTTGCCAGCACAAATTCGCAGAAAAGCTCAACAATCTCATATGCAGC
CAATATATTTTGCTCTCGAATAATGTGCTCCACCCGAATCCTTGCTATCGATTCCTGGCCTGTC
TGAAGATACTGAACCATCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCA
GCTTGATCCTCGAAATGACTAAATTCAAGCATGTTTTG
						
					

						Genomic sequence
						
							CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA
TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA
GCTTCTCGATTATCTGCATACAAGATGGACAATTTTATTCCTCTTTTTCTAAAATTGACACAAG
AATACAAGATGCTCAACTTGCAAGCAAAAACACAAATTAGTTTTCTGAAAAGAACAGATGTTGG
TGCTTCTTCTTACTGTACGATTAACACCGCTGTCAGGACGCAATTCCATAGCTGCAGCAACAAA
TTCCTTGCCATATTTGGTGGTGAACAAAGTACGGAGATGCATTAGCTCAGGCAAGTCTGAACAT
CTCCCTGATGCAAATATTATACTAGCTATTGCTTCCCGTAGTTCGAAGGGGCATTCCCTGTTCC
ATGATAAAGCCAGTAAACTGTTATGATACTGTATTAAGTGAGAGAAACAAATAATCATGATATA
TGCATGATGGCAAAACAGTAACTTAATGAGAAGACACTTGATAAAACTGGACCTACTTTTGGAC
CTCAACAATAGGGACCCTTGCCAGCACAAATTCGCAGAAAAGCTCAACAATCTCATATGCAGCC
AATATATTTTGCTCTCGAATAATGTGCTCCACCTATGAATAAAAATGATAGTTTAGAGAAATGA
AGAAAAAATAGAAATGGAACCATCTTTGTGCATATTTATTACTCCCTCCATTCCACAATATAAG
GCACAACCACTTTTCTTAGATGTTCCATAATACTCCCTCCATTCCAAAATATAAGGCATAACCA
CCCTTAATCCAAAGACCAAGAAATAATTATTATCACCTCTTTGTTTGAATCAATCCAATTAATA
CAATACATGCACCCAATAGAATTAAACATCTTGTGAGTGTATGATTTAAAAAATAATAATTTAG
GAGAGAAGAGATGGTAATTAATTGTCATGCATGCATGCACGCCTTATATTATGAAACACTTTTA
AAAAGTAGTTGTGCCCTATATTTTGGAATGGAGGGAGTATAAGGCATGCATGCAAGCATGCAAT
TAACTATGATATCTTCTCCATTAAATTATTACTATTTTAAATTCTCCACTCGCATGTTGTCTAA
TCCTATTGGATGCATGCATTATATTTATTAGGATGATCCAAACTACAAGATGATAATAATTATT
TCTTGGTCTTTGGGTTAAGGGTGGTTGTGCCTTATATTTTGGAATGGAGGGAGTAGCTCATAAA
TAGCAGTAATTTACCCGAATCCTTGCTATCGATTCCTGGCCTGTCTGAAGATACTGAACCATCT
CTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTGATCCTCGAAATGAC
TAAATTCAAGCATGTTTTG
						
					

			
		

Sequences
Splice junction sequence	AAGATACTGAACCATCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGC TTGATCCTCGAAATGACTAAATTCAAGCATGTTTTGcagcagatcttcgtatttcttgttaagc tctgcttcagtattcgatgagtcccattcaaggccatactcttgagcaatagctttcagaacct tcagcttt
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: 188 Transcript exons: 28372247-28372376,28373616-28373673 CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA GCCTCCCTCCTGTTGCGCAGCAGCTTGATCCTCGAAATGACTAAATTCAAGCATGTTTTG Transcript length: 202 Transcript exons: 28372247-28372369,28373595-28373673 CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACGCGCA TATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTGATCCTCGAAATGACTAAATTCAA GCATGTTTTG Transcript length: 219 Transcript exons: 28372247-28372380,28373589-28373673 CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA GCTTCTCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTGATCCTC GAAATGACTAAATTCAAGCATGTTTTG Transcript length: 225 Transcript exons: 28372247-28372354,28373557-28373673 CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCGATTCCTGGCCTGTCTGAAG ATACTGAACCATCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTG ATCCTCGAAATGACTAAATTCAAGCATGTTTTG Transcript length: 550 Transcript exons: 28372247-28372387,28372516-28372687,28372815-28372918,28 373541-28373673 CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA GCTTCTCGATTATTGTACGATTAACACCGCTGTCAGGACGCAATTCCATAGCTGCAGCAACAAA TTCCTTGCCATATTTGGTGGTGAACAAAGTACGGAGATGCATTAGCTCAGGCAAGTCTGAACAT CTCCCTGATGCAAATATTATACTAGCTATTGCTTCCCGTAGTTCGAAGGGGCATTCCTTTTGGA CCTCAACAATAGGGACCCTTGCCAGCACAAATTCGCAGAAAAGCTCAACAATCTCATATGCAGC CAATATATTTTGCTCTCGAATAATGTGCTCCACCCGAATCCTTGCTATCGATTCCTGGCCTGTC TGAAGATACTGAACCATCTCTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCA GCTTGATCCTCGAAATGACTAAATTCAAGCATGTTTTG
Genomic sequence	CAGCAGATCTTCGTATTTCTTGTTAAGCTCTGCTTCAGTATTCGATGAGTCCCATTCAAGGCCA TACTCTTGAGCAATAGCTTTCAGAACCTTCAGCTTTGATTCAGCTGATGGGGCCTTCACTGAGA GCTTCTCGATTATCTGCATACAAGATGGACAATTTTATTCCTCTTTTTCTAAAATTGACACAAG AATACAAGATGCTCAACTTGCAAGCAAAAACACAAATTAGTTTTCTGAAAAGAACAGATGTTGG TGCTTCTTCTTACTGTACGATTAACACCGCTGTCAGGACGCAATTCCATAGCTGCAGCAACAAA TTCCTTGCCATATTTGGTGGTGAACAAAGTACGGAGATGCATTAGCTCAGGCAAGTCTGAACAT CTCCCTGATGCAAATATTATACTAGCTATTGCTTCCCGTAGTTCGAAGGGGCATTCCCTGTTCC ATGATAAAGCCAGTAAACTGTTATGATACTGTATTAAGTGAGAGAAACAAATAATCATGATATA TGCATGATGGCAAAACAGTAACTTAATGAGAAGACACTTGATAAAACTGGACCTACTTTTGGAC CTCAACAATAGGGACCCTTGCCAGCACAAATTCGCAGAAAAGCTCAACAATCTCATATGCAGCC AATATATTTTGCTCTCGAATAATGTGCTCCACCTATGAATAAAAATGATAGTTTAGAGAAATGA AGAAAAAATAGAAATGGAACCATCTTTGTGCATATTTATTACTCCCTCCATTCCACAATATAAG GCACAACCACTTTTCTTAGATGTTCCATAATACTCCCTCCATTCCAAAATATAAGGCATAACCA CCCTTAATCCAAAGACCAAGAAATAATTATTATCACCTCTTTGTTTGAATCAATCCAATTAATA CAATACATGCACCCAATAGAATTAAACATCTTGTGAGTGTATGATTTAAAAAATAATAATTTAG GAGAGAAGAGATGGTAATTAATTGTCATGCATGCATGCACGCCTTATATTATGAAACACTTTTA AAAAGTAGTTGTGCCCTATATTTTGGAATGGAGGGAGTATAAGGCATGCATGCAAGCATGCAAT TAACTATGATATCTTCTCCATTAAATTATTACTATTTTAAATTCTCCACTCGCATGTTGTCTAA TCCTATTGGATGCATGCATTATATTTATTAGGATGATCCAAACTACAAGATGATAATAATTATT TCTTGGTCTTTGGGTTAAGGGTGGTTGTGCCTTATATTTTGGAATGGAGGGAGTAGCTCATAAA TAGCAGTAATTTACCCGAATCCTTGCTATCGATTCCTGGCCTGTCTGAAGATACTGAACCATCT CTTTGCGCATATTTATTAGCTGCAACTCCCTCCTGTTGCGCAGCAGCTTGATCCTCGAAATGAC TAAATTCAAGCATGTTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_002308* osi_circ_010576 						
					
						PMCS
						0.416283643

Conservation Information
Conserved circRNAs	osi_circ_002308* osi_circ_010576
PMCS	0.416283643

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28373651-28372291(+)
28373667-28372316(+)
28373602-28372877(-)
28372313-28372877(-)
						
						Potential amino acid sequence
						
							MTKFKHVLQQIFVFLVKLCFSIR*(+)
MFCSRSSYFLLSSASVFDESHSRPYS*(+)
MRKEMVQYLQTGQESIARIRVEHIIREQNILAAYEIVELFCEFVLARVPIVEVQKECPFELREA
IASIIFASGRCSDLPELMHLRTLFTTKYGKEFVAAAMELRPDSGVNRTIIEKLSVKAPSAESKL
KVLKAIAQEYGLEWDSSNTEAELNKKYEDLLQNMLEFSHFEDQAAAQQEGVAANKYAQRDGSVS
SDRPGIDSKDSGGAHYSRAKYIGCI*(-)
MALNGTHRILKQSLTRNTKICCKTCLNLVISRIKLLRNRRELQLINMRKEMVQYLQTGQESIAR
IRVEHIIREQNILAAYEIVELFCEFVLARVPIVEVQKECPFELREAIASIIFASGRCSDLPELM
HLRTLFTTKYGKEFVAAAMELRPDSGVNRTIIEKLSVKAPSAESKLKVLKAIAQEYGLEWDSSN
TEAELNKKYEDLLQNMLEFSHFEDQAAAQQEGVAANKYAQRDGSVSSDRPGIDSKDSGGAHYSR
AKYIGCI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28373651-28372291(+) 28373667-28372316(+) 28373602-28372877(-) 28372313-28372877(-)
Potential amino acid sequence	MTKFKHVLQQIFVFLVKLCFSIR(+) MFCSRSSYFLLSSASVFDESHSRPYS(+) MRKEMVQYLQTGQESIARIRVEHIIREQNILAAYEIVELFCEFVLARVPIVEVQKECPFELREA IASIIFASGRCSDLPELMHLRTLFTTKYGKEFVAAAMELRPDSGVNRTIIEKLSVKAPSAESKL KVLKAIAQEYGLEWDSSNTEAELNKKYEDLLQNMLEFSHFEDQAAAQQEGVAANKYAQRDGSVS SDRPGIDSKDSGGAHYSRAKYIGCI(-) MALNGTHRILKQSLTRNTKICCKTCLNLVISRIKLLRNRRELQLINMRKEMVQYLQTGQESIAR IRVEHIIREQNILAAYEIVELFCEFVLARVPIVEVQKECPFELREAIASIIFASGRCSDLPELM HLRTLFTTKYGKEFVAAAMELRPDSGVNRTIIEKLSVKAPSAESKLKVLKAIAQEYGLEWDSSN TEAELNKKYEDLLQNMLEFSHFEDQAAAQQEGVAANKYAQRDGSVSSDRPGIDSKDSGGAHYSR AKYIGCI(-)
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 Os01g0687700_circ_g.2

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