Plant Circular RNA Database

Detail information of Os06g0647400_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0647400_circ_g.3
					
						ID in PlantcircBase
						osa_circ_031766
					
						Alias
						Os_ciR10523
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 26458718-26461223  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os06g0647400						
					
						Parent gene annotation
						
							Similar to Lysosomal Pro-X carboxypeptidase. (Os06t0647400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0647400_circ_g.4 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot
					
						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
						Os06t0647400-02:3

General Information
CircRNA Name	Os06g0647400_circ_g.3
ID in PlantcircBase	osa_circ_031766
Alias	Os_ciR10523
Organism	Oryza sativa
Position	chr6: 26458718-26461223 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os06g0647400
Parent gene annotation	Similar to Lysosomal Pro-X carboxypeptidase. (Os06t0647400-02)
Parent gene strand	-
Alternative splicing	Os06g0647400_circ_g.4
Support reads	2/1
Tissues	root/shoot
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	Os06t0647400-02:3

			
						 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  
						
							CGAAGTCGGCGAGCGCTTGCGTCGACGTCAGGTACCCCAGCTTCTCCGGCGAGCTGTTCGACTC
GTTGCCGAACGGCTTCGACTCCCCGTAGAATCGATGttgcaggctctgaaggttttgctgagct
gtaagagccctgcatcagtggatcccctctcatctatcaaatcccaagctgccttgataacact
gaagcaat

									
								

					

						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: 428
Transcript exons: 26458718-26458830,26459988-26460121,26461043-26461223
TTGCAGGCTCTGAAGGTTTTGCTGAGCTGTAAGAGCCCTGCATCAGTGGATCCCCTCTCATCTA
TCAAATCCCAAGCTGCCTTGATAACACTGAAGCAATTGAAGCTTTCAGACTTGTAATCTTGCGA
GACGGCCTCGTAGAAGCTGCTCCATGGAGTTATGTAGTCGAACTGCAGGATCGGAGCAGAGGAC
GCGACGGCGCCAATGGTGACATGGGGATACTTTAGCCTGAACCATGAAGCCAACATGCCGCCGT
AGGAGCCACCGAAGACGACGACGGGGGAGGAGACGGCGGAGAGGTTGTGCTTGAGGCTGGTGAT
GAGGACGGCGAAGTCGGCGAGCGCTTGCGTCGACGTCAGGTACCCCAGCTTCTCCGGCGAGCTG
TTCGACTCGTTGCCGAACGGCTTCGACTCCCCGTAGAATCGATG
						
					

						Genomic sequence
						
							TTGCAGGCTCTGAAGGTTTTGCTGAGCTGTAAGAGCCCTGCATCAGTGGATCCCCTCTCATCTA
TCAAATCCCAAGCTGCCTTGATAACACTGAAGCAATTGAAGCTTTCAGACTGCAATATCAGTTG
CAAGTTATAGTCAGTTTACAAAAAGATTAATCGATGGTCAGTCACACAAAGATGCCAAATCTTA
CTCGGAAAAAAAATAGATCTGGTAAAAAAAAGAGTAAACAGCTCAGTCAAGTGGTTGCTTCTAT
GAAATACATTTTTGACAAATCGAAGAGAAGATTTATAGCCAGTCGCCAAGAAAGCGACTTTAAG
GTCCTGTTCTTAATGTCCGTATCCGTGGATTATTTGTGGATTATTCATACCACACTTTCAAAAG
TACGATTTCTCGACAAACTTTCTAATAGATCACTCATCAGCCCTCTCCACATTTCATTGGGCAT
TTGGGCCCTTAAAAAGCAGCAACCATGTCTGTACTCTTGATAAGCCTATGGCGTGGTCACTCAA
GCGTCGCAATCTAGCTAATTAAACAGTATAATCACAATCAGCCATGCAGGTTGCATGGTCTTCA
GGGCCTTGTCTACCTGAATCAGGTTGCCATTTCAATCCAGCATTTAAGCTGAATGTACATGAAC
AGTGCAGAGGCTAATAGTCCATCATAACAAATCCATCAACTACTAACTAACTATACCGGCAAAT
GCTCAATGATCATTCATCATTGGACTTGTAGTGTAGGCAATCAGCTGCAGGAGGAGACATGGCT
GCCATGCTTACCAACTTCAAGCCAACACGTACTGTCAGTTACAGTAGATGTACTGCATGCTGTG
ACTGACAGGTCAAAAGATGACGATTTTTACTGTACGTGACAACGGTCCAGTGACAATGACAGTG
GGCCACACCTAGATATTTTTCTTTCGTCAGATTTCCAGACAAACTGGCACCGGTCGGTCAGTAG
TTGACTTTCAACATCTAATGCACAATTTCCTTAAACAGTTCTATGAAATTATGCATCCCAAAAT
AAACCTGTCCTTGAACATAAATATTAATTTTGGTTACAAAACGCATAACTAGTTTTCATTAGTA
AGATTTGATTTGGTTAAAAAAAATACCGATACCTCACAGTGCCAAATCGTTTTCAATCATTGGA
TCTAGCTGGGCAGGATTGACATTGTTAGATTCAACGATCGAAAATGATTTGATACTGTGAGGTA
CCAGTACCTCGAGGTATTTTTTTGTTGGACCGGAGCAAATATCATCATTAGTACCTTGTAATCT
TGCGAGACGGCCTCGTAGAAGCTGCTCCATGGAGTTATGTAGTCGAACTGCAGGATCGGAGCAG
AGGACGCGACGGCGCCAATGGTGACATGGGGATACTTTAGCCTGAACCATGAAGCCAACACTGC
AAACAACAAGCAAAACAACAAAAAAAAAAGGATTAGTTCATCCTAATCTCGCTAATCCTAATAC
GAACAAAACCCCACGACGGCCAATGTCAGACACGCAGTACAACAATTATGGTAACTTTATGAAT
CATCCGTGTGTTTATAATCTAAGAGATCCAGATCCACGCCGCAACGAACAAAACAAAAAACACA
TGACACATGCTAAGTTCCTTAATAGTAACTTTTAACTATGCATGTAAATACAAAGCCTCGTCGT
TCCGTTTATGCTTATACTTACTTGTAAGTCTAAATTTAAATTTTAAAACTTAATTTTAAGTTAA
TTTCGTGGTTTTCCATCAGAATTTATTTTACAACATTTTATCTTGAATCGTGCTAAGGACACGT
GTAAAAATGTTTTATCCATAAATTATTGTTTTTACTAATAAATCGTTTGGATAAGCAAATTAGT
AGCGGAAATAATGGGACTGACATTTTTTTTAAATTCATTTTTAGAAATAATGGAACTCACATTT
GTTTAGATTTATAATTAGAAATAATGGGACTCACATTCGTTTAGATTCATTGTCAGAGATTGTT
ATATTATGAGGAATGGGACTCACATTTGTTTAGATTCATTTTCACATTTGTTTAGATTTATTTT
TAGAAACAATAGAATTCACATTTGTTTAGATTTATAGTTAGAAATTGTTATATTCTGAGGAACA
TCTATTATGAGACGTAATAGTTAATTAATTACAATGAGATTTGGATCAAACATTTTCTCTAAAA
AGAAATTAGAACAAACATTTTTTAAAAGGAAATTATGAGCATGTTGAGGATTGAACGTGAGGCA
TTAGAATTGAAACCACACACCAATTACCACTGCACTGATAGTGCATCTCAATACGTAATAGTTA
ATTTAATTATTGGTGACTTACTGCCGCCGTAGGAGCCACCGAAGACGACGACGGGGGAGGAGAC
GGCGGAGAGGTTGTGCTTGAGGCTGGTGATGAGGACGGCGAAGTCGGCGAGCGCTTGCGTCGAC
GTCAGGTACCCCAGCTTCTCCGGCGAGCTGTTCGACTCGTTGCCGAACGGCTTCGACTCCCCGT
AGAATCGATG
						
					

			
		

Sequences
Splice junction sequence	CGAAGTCGGCGAGCGCTTGCGTCGACGTCAGGTACCCCAGCTTCTCCGGCGAGCTGTTCGACTC GTTGCCGAACGGCTTCGACTCCCCGTAGAATCGATGttgcaggctctgaaggttttgctgagct gtaagagccctgcatcagtggatcccctctcatctatcaaatcccaagctgccttgataacact gaagcaat
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: 428 Transcript exons: 26458718-26458830,26459988-26460121,26461043-26461223 TTGCAGGCTCTGAAGGTTTTGCTGAGCTGTAAGAGCCCTGCATCAGTGGATCCCCTCTCATCTA TCAAATCCCAAGCTGCCTTGATAACACTGAAGCAATTGAAGCTTTCAGACTTGTAATCTTGCGA GACGGCCTCGTAGAAGCTGCTCCATGGAGTTATGTAGTCGAACTGCAGGATCGGAGCAGAGGAC GCGACGGCGCCAATGGTGACATGGGGATACTTTAGCCTGAACCATGAAGCCAACATGCCGCCGT AGGAGCCACCGAAGACGACGACGGGGGAGGAGACGGCGGAGAGGTTGTGCTTGAGGCTGGTGAT GAGGACGGCGAAGTCGGCGAGCGCTTGCGTCGACGTCAGGTACCCCAGCTTCTCCGGCGAGCTG TTCGACTCGTTGCCGAACGGCTTCGACTCCCCGTAGAATCGATG
Genomic sequence	TTGCAGGCTCTGAAGGTTTTGCTGAGCTGTAAGAGCCCTGCATCAGTGGATCCCCTCTCATCTA TCAAATCCCAAGCTGCCTTGATAACACTGAAGCAATTGAAGCTTTCAGACTGCAATATCAGTTG CAAGTTATAGTCAGTTTACAAAAAGATTAATCGATGGTCAGTCACACAAAGATGCCAAATCTTA CTCGGAAAAAAAATAGATCTGGTAAAAAAAAGAGTAAACAGCTCAGTCAAGTGGTTGCTTCTAT GAAATACATTTTTGACAAATCGAAGAGAAGATTTATAGCCAGTCGCCAAGAAAGCGACTTTAAG GTCCTGTTCTTAATGTCCGTATCCGTGGATTATTTGTGGATTATTCATACCACACTTTCAAAAG TACGATTTCTCGACAAACTTTCTAATAGATCACTCATCAGCCCTCTCCACATTTCATTGGGCAT TTGGGCCCTTAAAAAGCAGCAACCATGTCTGTACTCTTGATAAGCCTATGGCGTGGTCACTCAA GCGTCGCAATCTAGCTAATTAAACAGTATAATCACAATCAGCCATGCAGGTTGCATGGTCTTCA GGGCCTTGTCTACCTGAATCAGGTTGCCATTTCAATCCAGCATTTAAGCTGAATGTACATGAAC AGTGCAGAGGCTAATAGTCCATCATAACAAATCCATCAACTACTAACTAACTATACCGGCAAAT GCTCAATGATCATTCATCATTGGACTTGTAGTGTAGGCAATCAGCTGCAGGAGGAGACATGGCT GCCATGCTTACCAACTTCAAGCCAACACGTACTGTCAGTTACAGTAGATGTACTGCATGCTGTG ACTGACAGGTCAAAAGATGACGATTTTTACTGTACGTGACAACGGTCCAGTGACAATGACAGTG GGCCACACCTAGATATTTTTCTTTCGTCAGATTTCCAGACAAACTGGCACCGGTCGGTCAGTAG TTGACTTTCAACATCTAATGCACAATTTCCTTAAACAGTTCTATGAAATTATGCATCCCAAAAT AAACCTGTCCTTGAACATAAATATTAATTTTGGTTACAAAACGCATAACTAGTTTTCATTAGTA AGATTTGATTTGGTTAAAAAAAATACCGATACCTCACAGTGCCAAATCGTTTTCAATCATTGGA TCTAGCTGGGCAGGATTGACATTGTTAGATTCAACGATCGAAAATGATTTGATACTGTGAGGTA CCAGTACCTCGAGGTATTTTTTTGTTGGACCGGAGCAAATATCATCATTAGTACCTTGTAATCT TGCGAGACGGCCTCGTAGAAGCTGCTCCATGGAGTTATGTAGTCGAACTGCAGGATCGGAGCAG AGGACGCGACGGCGCCAATGGTGACATGGGGATACTTTAGCCTGAACCATGAAGCCAACACTGC AAACAACAAGCAAAACAACAAAAAAAAAAGGATTAGTTCATCCTAATCTCGCTAATCCTAATAC GAACAAAACCCCACGACGGCCAATGTCAGACACGCAGTACAACAATTATGGTAACTTTATGAAT CATCCGTGTGTTTATAATCTAAGAGATCCAGATCCACGCCGCAACGAACAAAACAAAAAACACA TGACACATGCTAAGTTCCTTAATAGTAACTTTTAACTATGCATGTAAATACAAAGCCTCGTCGT TCCGTTTATGCTTATACTTACTTGTAAGTCTAAATTTAAATTTTAAAACTTAATTTTAAGTTAA TTTCGTGGTTTTCCATCAGAATTTATTTTACAACATTTTATCTTGAATCGTGCTAAGGACACGT GTAAAAATGTTTTATCCATAAATTATTGTTTTTACTAATAAATCGTTTGGATAAGCAAATTAGT AGCGGAAATAATGGGACTGACATTTTTTTTAAATTCATTTTTAGAAATAATGGAACTCACATTT GTTTAGATTTATAATTAGAAATAATGGGACTCACATTCGTTTAGATTCATTGTCAGAGATTGTT ATATTATGAGGAATGGGACTCACATTTGTTTAGATTCATTTTCACATTTGTTTAGATTTATTTT TAGAAACAATAGAATTCACATTTGTTTAGATTTATAGTTAGAAATTGTTATATTCTGAGGAACA TCTATTATGAGACGTAATAGTTAATTAATTACAATGAGATTTGGATCAAACATTTTCTCTAAAA AGAAATTAGAACAAACATTTTTTAAAAGGAAATTATGAGCATGTTGAGGATTGAACGTGAGGCA TTAGAATTGAAACCACACACCAATTACCACTGCACTGATAGTGCATCTCAATACGTAATAGTTA ATTTAATTATTGGTGACTTACTGCCGCCGTAGGAGCCACCGAAGACGACGACGGGGGAGGAGAC GGCGGAGAGGTTGTGCTTGAGGCTGGTGATGAGGACGGCGAAGTCGGCGAGCGCTTGCGTCGAC GTCAGGTACCCCAGCTTCTCCGGCGAGCTGTTCGACTCGTTGCCGAACGGCTTCGACTCCCCGT AGAATCGATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016477 						
					
						PMCS
						0.215217089

Conservation Information
Conserved circRNAs	osi_circ_016477
PMCS	0.215217089

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							26461222-26459991(+)
26461045-26461153(-)
26458780-26458828(-)
						
						Potential amino acid sequence
						
							MLQALKVLLSCKSPASVDPLSSIKSQAALITLKQLKLSDL*(+)
MLASWFRLKYPHVTIGAVASSAPILQFDYITPWSSFYEAVSQDYKSESFNCFSVIKAAWDLIDE
RGSTDAGLLQLSKTFRACNIDSTGSRSRSATSRTARRRSWGT*(-)
MRGDPLMQGSYSSAKPSEPATSILRGVEAVRQRVEQLAGEAGVPDVDASARRLRRPHHQPQAQP
LRRLLPRRRLRWLLRRHVGFMVQAKVSPCHHWRRRVLCSDPAVRLHNSMEQLLRGRLARLQV*(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	26461222-26459991(+) 26461045-26461153(-) 26458780-26458828(-)
Potential amino acid sequence	MLQALKVLLSCKSPASVDPLSSIKSQAALITLKQLKLSDL(+) MLASWFRLKYPHVTIGAVASSAPILQFDYITPWSSFYEAVSQDYKSESFNCFSVIKAAWDLIDE RGSTDAGLLQLSKTFRACNIDSTGSRSRSATSRTARRRSWGT(-) MRGDPLMQGSYSSAKPSEPATSILRGVEAVRQRVEQLAGEAGVPDVDASARRLRRPHHQPQAQP LRRLLPRRRLRWLLRRHVGFMVQAKVSPCHHWRRRVLCSDPAVRLHNSMEQLLRGRLARLQV*( -)
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 Os06g0647400_circ_g.3

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