Plant Circular RNA Database

Detail information of Os11g0587600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os11g0587600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_009691
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 22275344-22276238  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0587600						
					
						Parent gene annotation
						
							Similar to PDR-like ABC transporter. (Os11t0587600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						3
					
						Tissues
						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
						Os11t0587600-01:3

General Information
CircRNA Name	Os11g0587600_circ_g.2
ID in PlantcircBase	osa_circ_009691
Alias	NA
Organism	Oryza sativa
Position	chr11: 22275344-22276238 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0587600
Parent gene annotation	Similar to PDR-like ABC transporter. (Os11t0587600-01)
Parent gene strand	-
Alternative splicing	NA
Support reads	3
Tissues	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	Os11t0587600-01:3

			
						 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  
						
							TTACACCAACTAATGCTGTCAAAACACCTGGTCTGAAAACTCCACTGATATCAGATAGTAACTG
GAGACGGCTTTCTGTGAATCCTTGCTCTTTCATTTCctcaaaatattcaactagtttatgggag
tggcggccgagttcaccagcataaataacttgccctccccttttcaatagcaaaagctggagaa
gaaacaat

									
								

					

						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: 708
Transcript exons: 22275344-22275427,22275505-22275795,22275906-22276238
CTCAAAATATTCAACTAGTTTATGGGAGTGGCGGCCGAGTTCACCAGCATAAATAACTTGCCCT
CCCCTTTTCAATAGCAAAAGCTCATCAAAAGACTCAAAAATATCGATGCTGGGTTGATGAATTG
TGCAAACCACAGTGCGTCCCGTGTTGACGGTATTTCTCACGGTTCGCATGACAATTGCTGCAGC
TCTAGCATCAAGTCCAGAAGTTGGCTCATCCATGAATATTACTGAAGGGTTTGCTACCAACTCC
ACTGCAATTGTGAGCCTCTTTCTCTGTTCAGTTGATAAACCACTAACTCCAGGAAGACCCACCA
AAGCATTACGTAACACATCAAGCTCTACAAGGGACATGACTTCATCCACGAACATCTTCCTCGT
ATTGGTGTCAACATCTGACGAAAGACGTAGCCAAGCAGAGTAGAGAATGGATTCATAGACAGTA
ACATTTGGTGAATGAATATCAGTCTGTTCACAGTAACCACTAATGCGTGCAAAAGTTTCTTGTT
TCTTTGGATAACCAGAGAGGGTGATGTCTCCTTCAATTACTCCACTTGTTTTCCTTCCTGCTAA
GACATCCATTAGGGTGGTCTTGCCAGCTCCACTTACACCAACTAATGCTGTCAAAACACCTGGT
CTGAAAACTCCACTGATATCAGATAGTAACTGGAGACGGCTTTCTGTGAATCCTTGCTCTTTCA
TTTC
						
					

						Genomic sequence
						
							CTCAAAATATTCAACTAGTTTATGGGAGTGGCGGCCGAGTTCACCAGCATAAATAACTTGCCCT
CCCCTTTTCAATAGCAAAAGCTGGAGAAGAAACAATCGTTATTTATTTACATGAATTTTTTTTT
AGAATTTCAAAGAGAAATAGCAAAGAGAGGGACCTCATCAAAAGACTCAAAAATATCGATGCTG
GGTTGATGAATTGTGCAAACCACAGTGCGTCCCGTGTTGACGGTATTTCTCACGGTTCGCATGA
CAATTGCTGCAGCTCTAGCATCAAGTCCAGAAGTTGGCTCATCCATGAATATTACTGAAGGGTT
TGCTACCAACTCCACTGCAATTGTGAGCCTCTTTCTCTGTTCAGTTGATAAACCACTAACTCCA
GGAAGACCCACCAAAGCATTACGTAACACATCAAGCTCTACAAGGGACATGACTTCATCCACGA
ACATCTACATGAGTGAAGAGTTCAGTTAAATTTGATTAAATTACTATTTGGATGTTCACATATA
TAGAGCTCAGCAATACAACATCATGAGTGTGGAACATAGTTTAGTATTACCTTCCTCGTATTGG
TGTCAACATCTGACGAAAGACGTAGCCAAGCAGAGTAGAGAATGGATTCATAGACAGTAACATT
TGGTGAATGAATATCAGTCTGTTCACAGTAACCACTAATGCGTGCAAAAGTTTCTTGTTTCTTT
GGATAACCAGAGAGGGTGATGTCTCCTTCAATTACTCCACTTGTTTTCCTTCCTGCTAAGACAT
CCATTAGGGTGGTCTTGCCAGCTCCACTTACACCAACTAATGCTGTCAAAACACCTGGTCTGAA
AACTCCACTGATATCAGATAGTAACTGGAGACGGCTTTCTGTGAATCCTTGCTCTTTCATTTC
						
					

			
		

Sequences
Splice junction sequence	TTACACCAACTAATGCTGTCAAAACACCTGGTCTGAAAACTCCACTGATATCAGATAGTAACTG GAGACGGCTTTCTGTGAATCCTTGCTCTTTCATTTCctcaaaatattcaactagtttatgggag tggcggccgagttcaccagcataaataacttgccctccccttttcaatagcaaaagctggagaa gaaacaat
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: 708 Transcript exons: 22275344-22275427,22275505-22275795,22275906-22276238 CTCAAAATATTCAACTAGTTTATGGGAGTGGCGGCCGAGTTCACCAGCATAAATAACTTGCCCT CCCCTTTTCAATAGCAAAAGCTCATCAAAAGACTCAAAAATATCGATGCTGGGTTGATGAATTG TGCAAACCACAGTGCGTCCCGTGTTGACGGTATTTCTCACGGTTCGCATGACAATTGCTGCAGC TCTAGCATCAAGTCCAGAAGTTGGCTCATCCATGAATATTACTGAAGGGTTTGCTACCAACTCC ACTGCAATTGTGAGCCTCTTTCTCTGTTCAGTTGATAAACCACTAACTCCAGGAAGACCCACCA AAGCATTACGTAACACATCAAGCTCTACAAGGGACATGACTTCATCCACGAACATCTTCCTCGT ATTGGTGTCAACATCTGACGAAAGACGTAGCCAAGCAGAGTAGAGAATGGATTCATAGACAGTA ACATTTGGTGAATGAATATCAGTCTGTTCACAGTAACCACTAATGCGTGCAAAAGTTTCTTGTT TCTTTGGATAACCAGAGAGGGTGATGTCTCCTTCAATTACTCCACTTGTTTTCCTTCCTGCTAA GACATCCATTAGGGTGGTCTTGCCAGCTCCACTTACACCAACTAATGCTGTCAAAACACCTGGT CTGAAAACTCCACTGATATCAGATAGTAACTGGAGACGGCTTTCTGTGAATCCTTGCTCTTTCA TTTC
Genomic sequence	CTCAAAATATTCAACTAGTTTATGGGAGTGGCGGCCGAGTTCACCAGCATAAATAACTTGCCCT CCCCTTTTCAATAGCAAAAGCTGGAGAAGAAACAATCGTTATTTATTTACATGAATTTTTTTTT AGAATTTCAAAGAGAAATAGCAAAGAGAGGGACCTCATCAAAAGACTCAAAAATATCGATGCTG GGTTGATGAATTGTGCAAACCACAGTGCGTCCCGTGTTGACGGTATTTCTCACGGTTCGCATGA CAATTGCTGCAGCTCTAGCATCAAGTCCAGAAGTTGGCTCATCCATGAATATTACTGAAGGGTT TGCTACCAACTCCACTGCAATTGTGAGCCTCTTTCTCTGTTCAGTTGATAAACCACTAACTCCA GGAAGACCCACCAAAGCATTACGTAACACATCAAGCTCTACAAGGGACATGACTTCATCCACGA ACATCTACATGAGTGAAGAGTTCAGTTAAATTTGATTAAATTACTATTTGGATGTTCACATATA TAGAGCTCAGCAATACAACATCATGAGTGTGGAACATAGTTTAGTATTACCTTCCTCGTATTGG TGTCAACATCTGACGAAAGACGTAGCCAAGCAGAGTAGAGAATGGATTCATAGACAGTAACATT TGGTGAATGAATATCAGTCTGTTCACAGTAACCACTAATGCGTGCAAAAGTTTCTTGTTTCTTT GGATAACCAGAGAGGGTGATGTCTCCTTCAATTACTCCACTTGTTTTCCTTCCTGCTAAGACAT CCATTAGGGTGGTCTTGCCAGCTCCACTTACACCAACTAATGCTGTCAAAACACCTGGTCTGAA AACTCCACTGATATCAGATAGTAACTGGAGACGGCTTTCTGTGAATCCTTGCTCTTTCATTTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.482516611

Conservation Information
Conserved circRNAs	NA
PMCS	0.482516611

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							22276067-22275392(+)
22276237-22275346(-)
						
						Potential amino acid sequence
						
							MSPSITPLVFLPAKTSIRVVLPAPLTPTNAVKTPGLKTPLISDSNWRRLSVNPCSFISSKYSTS
LWEWRPSSPA*(+)
MKEQGFTESRLQLLSDISGVFRPGVLTALVGVSGAGKTTLMDVLAGRKTSGVIEGDITLSGYPK
KQETFARISGYCEQTDIHSPNVTVYESILYSAWLRLSSDVDTNTRKMFVDEVMSLVELDVLRNA
LVGLPGVSGLSTEQRKRLTIAVELVANPSVIFMDEPTSGLDARAAAIVMRTVRNTVNTGRTVVC
TIHQPSIDIFESFDELLLLKRGGQVIYAGELGRHSHKLVEYFEEMKEQGFTESRLQLLSDISGV
FRPGVLTALVGVSGAGKTTLMDVLAGRKTSGVIEGDITLSGYPKKQETFARISGYCEQTDIHSP
NVTVYESILYSAWLRLSSDVDTNTRKMFVDEVMSLVELDVLRNALVGLPGVSGLSTEQRKRLTI
AVELVANPSVIFMDEPTSGLDARAAAIVMRTVRNTVNTGRTVVCTIHQPSIDIFESFDELLLLK
RGGQVIYAGELGRHSHKLVEYFEEMKEQGFTESRLQLLSDISGVFRPGVLTALVGVSGAGKTTL
MDVLAGRKTSGVIEGDITLSGYPKKQETFARISGYCEQTDIHSPNVTVYESILYSAWLRLSSDV
DTNTRKMFVDEVMSLVELDVLRNALVGLPGVSGLSTEQRKRLTIAVELVANPSVIFMDEPTSGL
DARAAAIVMRTVRNTVNTGRTVVCTIHQPSIDIFESFDELLLLKRGGQVIYAGELGRHSHKLVE
YFEEMKEQGFTESRLQLLSDISGVFRPGVLTALVGVSGAGKTTLMDVLAGRKTSGVIEGDITLS
GYPKKQETFARISGYCEQTDIHSPNVTVYESILYSAWLRLSSDVDTNTRKMFVDEVMSLVELDV
LRNALVGLPGVSGLSTEQRKRLTIAVELVANPSVIFMDEPTSGLDARAAAIVMRTVRNTVNTGR
TVVCTIHQPSIDIFESFDELLLLKRGGQVIYAGELGRHSHKLVEYFE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	22276067-22275392(+) 22276237-22275346(-)
Potential amino acid sequence	MSPSITPLVFLPAKTSIRVVLPAPLTPTNAVKTPGLKTPLISDSNWRRLSVNPCSFISSKYSTS LWEWRPSSPA*(+) MKEQGFTESRLQLLSDISGVFRPGVLTALVGVSGAGKTTLMDVLAGRKTSGVIEGDITLSGYPK KQETFARISGYCEQTDIHSPNVTVYESILYSAWLRLSSDVDTNTRKMFVDEVMSLVELDVLRNA LVGLPGVSGLSTEQRKRLTIAVELVANPSVIFMDEPTSGLDARAAAIVMRTVRNTVNTGRTVVC TIHQPSIDIFESFDELLLLKRGGQVIYAGELGRHSHKLVEYFEEMKEQGFTESRLQLLSDISGV FRPGVLTALVGVSGAGKTTLMDVLAGRKTSGVIEGDITLSGYPKKQETFARISGYCEQTDIHSP NVTVYESILYSAWLRLSSDVDTNTRKMFVDEVMSLVELDVLRNALVGLPGVSGLSTEQRKRLTI AVELVANPSVIFMDEPTSGLDARAAAIVMRTVRNTVNTGRTVVCTIHQPSIDIFESFDELLLLK RGGQVIYAGELGRHSHKLVEYFEEMKEQGFTESRLQLLSDISGVFRPGVLTALVGVSGAGKTTL MDVLAGRKTSGVIEGDITLSGYPKKQETFARISGYCEQTDIHSPNVTVYESILYSAWLRLSSDV DTNTRKMFVDEVMSLVELDVLRNALVGLPGVSGLSTEQRKRLTIAVELVANPSVIFMDEPTSGL DARAAAIVMRTVRNTVNTGRTVVCTIHQPSIDIFESFDELLLLKRGGQVIYAGELGRHSHKLVE YFEEMKEQGFTESRLQLLSDISGVFRPGVLTALVGVSGAGKTTLMDVLAGRKTSGVIEGDITLS GYPKKQETFARISGYCEQTDIHSPNVTVYESILYSAWLRLSSDVDTNTRKMFVDEVMSLVELDV LRNALVGLPGVSGLSTEQRKRLTIAVELVANPSVIFMDEPTSGLDARAAAIVMRTVRNTVNTGR TVVCTIHQPSIDIFESFDELLLLKRGGQVIYAGELGRHSHKLVEYFE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0587600_circ_g.2

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