Plant Circular RNA Database

Detail information of Os06g0476200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0476200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_030856
					
						Alias
						Os06circ10079
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 16017942-16023493  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
					
						Parent gene
						
							Os06g0476200						
					
						Parent gene annotation
						
							Similar to Phosphoglucomutase precursor (EC 5.4.2.2). (Os06t0476
200-01);Similar to predicted protein. (Os06t0476200-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0476200_circ_g.2 Os06g0476200_circ_g.4 Os06g0476200_circ_g.5 						
					
						Support reads
						59/2
					
						Tissues
						leaf/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  
						
							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
						Os06t0476200-02:2
Os06t0476200-01:4

General Information
CircRNA Name	Os06g0476200_circ_g.3
ID in PlantcircBase	osa_circ_030856
Alias	Os06circ10079
Organism	Oryza sativa
Position	chr6: 16017942-16023493 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, SMALT, Segemehl, circRNA_finder, find_circ
Parent gene	Os06g0476200
Parent gene annotation	Similar to Phosphoglucomutase precursor (EC 5.4.2.2). (Os06t0476 200-01);Similar to predicted protein. (Os06t0476200-02)
Parent gene strand	+
Alternative splicing	Os06g0476200_circ_g.2 Os06g0476200_circ_g.4 Os06g0476200_circ_g.5
Support reads	59/2
Tissues	leaf/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	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	Os06t0476200-02:2 Os06t0476200-01:4

			
						 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  
						
							ATGGTTGGGTTCTCGATGACTGTGGGGATTGCTCGGTTAGCCAAGGATGCCTCGTGGACACGAA
TGATGATCCTTTTGATGTTGATGCGTACATGTACAGatgactgcatcacatctcccatacactc
gcaacggcctcaagttcttcatgaagcgcggtggtctcacgtccggcgaggtggaaggggtctg
cgaccgtg

									
								

					

						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: 1100
Transcript exons: 16017942-16018209,16018399-16018917,16019109-16019308,16
023381-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGGAAGAT
GGGCCTTGGCGGCGGGCGAGGCATGCCGCCGGTGGTGATGCGCGTCGACTTGATGAGCGCCTAT
GCGCAGCACCTCCGCAACATAATCAAGGAGCGTGTTGCCCACCCGACACACTACGACACCCCCC
TAAAGGGCTTCAAGGTGATCGTGAATGCCGGCAACGGCTGCGGAGGGTTCTTCACGTGGGACGT
CCTGGAGAAGCTGGGAGCCGACACGACGGGGAGCCTCCACCTGGAGCCCGACGGCAAGTTCCCT
CACCACATGCCCAACCCGGAGGACACGACCGCGATGTCCCTCACGCGCGATGCGGTCCTGGACC
ACGGCGCGGACCTCGGCGTGGTGTTCGACACCGACGTGGACCGCAGCGGCGTGGTGGACGCCAC
GGGCGCGGCCATCAACGGCGATCGGCTCATCGCGCTCATGTCCGCCATCGTGCTGGACGAGCAC
CCCGGCACGACGGTGGTCACGGACGCGCGGACCAGCGACGGGCTCACCCGCTTCATCCAGGCCA
GGGGCGGCCACCACTGCCTCTACCGCGTCGGCTACCGAAACGTCATTGACAAGGGCGTGCAGCT
CAACGCCGACGGCGTCGAGACGCACCTCATGATGGAGACCACCGGCCACGGCGCGCTCAAGGAG
AACAACTTTCTCGACGACGGTGCGTACATGGTGGTGAAGATTATTATCGAGATGGTCAGGATGA
GACTCGTGGGATTGGAGGGAAGCGTAGGAACACTCATCATGGACCTTGAGGAGCCGGCTGAGTC
CAAGCTGATGAGGATGAACATTCTGGGAGAAGCCAAGTATGCAAAACAAAGGGGCACTCAAGCA
GTCGAGACTTTTAGGAACCATATCCAGGAAGGGAAACTAAATGGTTGGGTTCTCGATGACTGTG
GGGATTGCTCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGC
GTACATGTACAG
Transcript length: 171
Transcript exons: 16017942-16018063,16023445-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGTCGTGG
ACACGAATGATGATCCTTTTGATGTTGATGCGTACATGTACAG
Transcript length: 188
Transcript exons: 16017942-16018027,16023392-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGGAAATGGTTGGGTTCTCGATGACTGTGGGGATTGCTCGGTTAG
CCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGTACAG
Transcript length: 190
Transcript exons: 16017942-16018089,16023452-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGGAAGAT
GGGCCTTGGCGGCGGGCGAGCACGAATGATGATCCTTTTGATGTTGATGCGTACATGTACAG
Transcript length: 196
Transcript exons: 16017942-16018026,16023383-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGAGGGAAACTAAATGGTTGGGTTCTCGATGACTGTGGGGATTGC
TCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGT
ACAG
Transcript length: 196
Transcript exons: 16017942-16018048,16023405-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGCTCGATGACTGTGGGGATTGC
TCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGT
ACAG
Transcript length: 204
Transcript exons: 16017942-16018037,16023386-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACGAAACTAAATGGTTGGGTTCTCGATGACTGTG
GGGATTGCTCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGC
GTACATGTACAG
Transcript length: 322
Transcript exons: 16017942-16018161,16023392-16023493
ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC
TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGGAAGAT
GGGCCTTGGCGGCGGGCGAGGCATGCCGCCGGTGGTGATGCGCGTCGACTTGATGAGCGCCTAT
GCGCAGCACCTCCGCAACATAATCAAGGAAATGGTTGGGTTCTCGATGACTGTGGGGATTGCTC
GGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGTAC
AG
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	ATGGTTGGGTTCTCGATGACTGTGGGGATTGCTCGGTTAGCCAAGGATGCCTCGTGGACACGAA TGATGATCCTTTTGATGTTGATGCGTACATGTACAGatgactgcatcacatctcccatacactc gcaacggcctcaagttcttcatgaagcgcggtggtctcacgtccggcgaggtggaaggggtctg cgaccgtg
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: 1100 Transcript exons: 16017942-16018209,16018399-16018917,16019109-16019308,16 023381-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGGAAGAT GGGCCTTGGCGGCGGGCGAGGCATGCCGCCGGTGGTGATGCGCGTCGACTTGATGAGCGCCTAT GCGCAGCACCTCCGCAACATAATCAAGGAGCGTGTTGCCCACCCGACACACTACGACACCCCCC TAAAGGGCTTCAAGGTGATCGTGAATGCCGGCAACGGCTGCGGAGGGTTCTTCACGTGGGACGT CCTGGAGAAGCTGGGAGCCGACACGACGGGGAGCCTCCACCTGGAGCCCGACGGCAAGTTCCCT CACCACATGCCCAACCCGGAGGACACGACCGCGATGTCCCTCACGCGCGATGCGGTCCTGGACC ACGGCGCGGACCTCGGCGTGGTGTTCGACACCGACGTGGACCGCAGCGGCGTGGTGGACGCCAC GGGCGCGGCCATCAACGGCGATCGGCTCATCGCGCTCATGTCCGCCATCGTGCTGGACGAGCAC CCCGGCACGACGGTGGTCACGGACGCGCGGACCAGCGACGGGCTCACCCGCTTCATCCAGGCCA GGGGCGGCCACCACTGCCTCTACCGCGTCGGCTACCGAAACGTCATTGACAAGGGCGTGCAGCT CAACGCCGACGGCGTCGAGACGCACCTCATGATGGAGACCACCGGCCACGGCGCGCTCAAGGAG AACAACTTTCTCGACGACGGTGCGTACATGGTGGTGAAGATTATTATCGAGATGGTCAGGATGA GACTCGTGGGATTGGAGGGAAGCGTAGGAACACTCATCATGGACCTTGAGGAGCCGGCTGAGTC CAAGCTGATGAGGATGAACATTCTGGGAGAAGCCAAGTATGCAAAACAAAGGGGCACTCAAGCA GTCGAGACTTTTAGGAACCATATCCAGGAAGGGAAACTAAATGGTTGGGTTCTCGATGACTGTG GGGATTGCTCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGC GTACATGTACAG Transcript length: 171 Transcript exons: 16017942-16018063,16023445-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGTCGTGG ACACGAATGATGATCCTTTTGATGTTGATGCGTACATGTACAG Transcript length: 188 Transcript exons: 16017942-16018027,16023392-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGGAAATGGTTGGGTTCTCGATGACTGTGGGGATTGCTCGGTTAG CCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGTACAG Transcript length: 190 Transcript exons: 16017942-16018089,16023452-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGGAAGAT GGGCCTTGGCGGCGGGCGAGCACGAATGATGATCCTTTTGATGTTGATGCGTACATGTACAG Transcript length: 196 Transcript exons: 16017942-16018026,16023383-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGAGGGAAACTAAATGGTTGGGTTCTCGATGACTGTGGGGATTGC TCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGT ACAG Transcript length: 196 Transcript exons: 16017942-16018048,16023405-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGCTCGATGACTGTGGGGATTGC TCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGT ACAG Transcript length: 204 Transcript exons: 16017942-16018037,16023386-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACGAAACTAAATGGTTGGGTTCTCGATGACTGTG GGGATTGCTCGGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGC GTACATGTACAG Transcript length: 322 Transcript exons: 16017942-16018161,16023392-16023493 ATGACTGCATCACATCTCCCATACACTCGCAACGGCCTCAAGTTCTTCATGAAGCGCGGTGGTC TCACGTCCGGCGAGGTGGAAGGGGTCTGCGACCGTGCGGCGCGGAAGTACGTGGCCAGGAAGAT GGGCCTTGGCGGCGGGCGAGGCATGCCGCCGGTGGTGATGCGCGTCGACTTGATGAGCGCCTAT GCGCAGCACCTCCGCAACATAATCAAGGAAATGGTTGGGTTCTCGATGACTGTGGGGATTGCTC GGTTAGCCAAGGATGCCTCGTGGACACGAATGATGATCCTTTTGATGTTGATGCGTACATGTAC AG
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006736* 						
					
						PMCS
						0.395011517

Conservation Information
Conserved circRNAs	osi_circ_006736*
PMCS	0.395011517

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16017943-16017942(+)
16023395-16018816(+)
16018095-16023432(-)
16017965-16023392(-)
						
						Potential amino acid sequence
						
							MTASHLPYTRNGLKFFMKRGGLTSGEVEGVCDRAARKYVARKMGLGGGRGMPPVVMRVDLMSAY
AQHLRNIIKERVAHPTHYDTPLKGFKVIVNAGNGCGGFFTWDVLEKLGADTTGSLHLEPDGKFP
HHMPNPEDTTAMSLTRDAVLDHGADLGVVFDTDVDRSGVVDATGAAINGDRLIALMSAIVLDEH
PGTTVVTDARTSDGLTRFIQARGGHHCLYRVGYRNVIDKGVQLNADGVETHLMMETTGHGALKE
NNFLDDGAYMVVKIIIEMVRMRLVGLEGSVGTLIMDLEEPAESKLMRMNILGEAKYAKQRGTQA
VETFRNHIQEGKLNGWVLDDCGDCSVSQGCLVDTNDDPFDVDAYMYR*(+)
MVGFSMTVGIARLAKDASWTRMMILLMLMRTCTDDCITSPIHSQRPQVLHEARWSHVRRGGRGL
RPCGAEVRGQEDGPWRRARHAAGGDARRLDERLCAAPPQHNQGACCPPDTLRHPPKGLQGDREC
RQRLRRVLHVGRPGEAGSRHDGEPPPGARRQVPSPHAQPGGHDRDVPHARCGPGPRRGPRRGVR
HRRGPQRRGGRHGRGHQRRSAHRAHVRHRAGRAPRHDGGHGRADQRRAHPLHPGQGRPPLPLPR
RLPKRH*(+)
MPRPPPRPIFLATYFRAARSQTPSTSPDVRPPRFMKNLRPLRVYGRCDAVICTCTHQHQKDHHS
CPRGILG*(-)
MGDVMQSSVHVRINIKRIIIRVHEASLANRAIPTVIENPTI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16017943-16017942(+) 16023395-16018816(+) 16018095-16023432(-) 16017965-16023392(-)
Potential amino acid sequence	MTASHLPYTRNGLKFFMKRGGLTSGEVEGVCDRAARKYVARKMGLGGGRGMPPVVMRVDLMSAY AQHLRNIIKERVAHPTHYDTPLKGFKVIVNAGNGCGGFFTWDVLEKLGADTTGSLHLEPDGKFP HHMPNPEDTTAMSLTRDAVLDHGADLGVVFDTDVDRSGVVDATGAAINGDRLIALMSAIVLDEH PGTTVVTDARTSDGLTRFIQARGGHHCLYRVGYRNVIDKGVQLNADGVETHLMMETTGHGALKE NNFLDDGAYMVVKIIIEMVRMRLVGLEGSVGTLIMDLEEPAESKLMRMNILGEAKYAKQRGTQA VETFRNHIQEGKLNGWVLDDCGDCSVSQGCLVDTNDDPFDVDAYMYR(+) MVGFSMTVGIARLAKDASWTRMMILLMLMRTCTDDCITSPIHSQRPQVLHEARWSHVRRGGRGL RPCGAEVRGQEDGPWRRARHAAGGDARRLDERLCAAPPQHNQGACCPPDTLRHPPKGLQGDREC RQRLRRVLHVGRPGEAGSRHDGEPPPGARRQVPSPHAQPGGHDRDVPHARCGPGPRRGPRRGVR HRRGPQRRGGRHGRGHQRRSAHRAHVRHRAGRAPRHDGGHGRADQRRAHPLHPGQGRPPLPLPR RLPKRH(+) MPRPPPRPIFLATYFRAARSQTPSTSPDVRPPRFMKNLRPLRVYGRCDAVICTCTHQHQKDHHS CPRGILG(-) MGDVMQSSVHVRINIKRIIIRVHEASLANRAIPTVIENPTI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Chu et al., 2017

circRNA

Detail information of Os06g0476200_circ_g.3

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