Plant Circular RNA Database

Detail information of Os07g0660200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0660200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_035152
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 27828508-27829811  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0660200						
					
						Parent gene annotation
						
							Similar to chromatin remodeling complex subunit. (Os07t0660200-0
1);Hypothetical conserved gene. (Os07t0660200-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0660200_circ_g.1 Os07g0660200_circ_g.2 						
					
						Support reads
						1
					
						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
						Os07t0660200-02:4
Os07t0660200-01:4

General Information
CircRNA Name	Os07g0660200_circ_g.3
ID in PlantcircBase	osa_circ_035152
Alias	NA
Organism	Oryza sativa
Position	chr7: 27828508-27829811 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0660200
Parent gene annotation	Similar to chromatin remodeling complex subunit. (Os07t0660200-0 1);Hypothetical conserved gene. (Os07t0660200-02)
Parent gene strand	-
Alternative splicing	Os07g0660200_circ_g.1 Os07g0660200_circ_g.2
Support reads	1
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	Os07t0660200-02:4 Os07t0660200-01:4

			
						 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  
						
							GTGCATCGATTCCTCGCCTTTTCCTGTTGCTATTCTTATCAAGTTGGTGATCTTCAACATAGCT
CTTCTTATTTCTTGCAGCACGAGGTGCTAAAGTCTCcttttgtagaagagcactagcacgatta
tccaagttcggtgcacgcggtaaaaacgtctctcgttcaccaagggttgctggtgcaattttcg
ctgtcaag

									
								

					

						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: 753
Transcript exons: 27828508-27828689,27828770-27828947,27829032-27829184,27
829572-27829811
CTTTTGTAGAAGAGCACTAGCACGATTATCCAAGTTCGGTGCACGCGGTAAAAACGTCTCTCGT
TCACCAAGGGTTGCTGGTGCAATTTTCGCTGTCAAGCTAAGTTTTGGATCTAATCGTATCTTCT
CCCAATTTCCATAGCCATACCAATGAATTCCAACCATCAATCTTGCATCATCAGTTTCAGTCCA
ACCACAGCTTGCTGACCACTGTGGCTTTTTGTAAGGTGCCTGGATCCGGTATTGTCTAACTGGA
TCTTTGTAACGTGCAATGCGCCTTGCCAGGAACTGTAGCTCTTCCACACGGGCTATCAACTCAT
GCGCCTTAACTGCTACACCAAAAAAATCCAACACTGTGCCCTTGGCATCCATATTATTTTTAAC
AGCATCTTGACAACCCTCAATGAGTAGAGTAAACAGCTCAAGCTGTTGATCAACCGAAGACTTT
GCTATTGCACCACCAACATCATCCACGATTAACCCAATTTGGCTTGGGTTTCCAAATTTTTTAA
CCGCTCGAACAAATCGGGTAGCATCTTTCTTTGACAAATTTCCAAATGACCATTCTCGTACTTG
ATGTGCTGAACCATCTATGAGTGGTAATGACACAGCTGTGTCCATTGTTCTGCTAGAACGCCTC
CTTGGCTTTTCTTGTGCATCGATTCCTCGCCTTTTCCTGTTGCTATTCTTATCAAGTTGGTGAT
CTTCAACATAGCTCTTCTTATTTCTTGCAGCACGAGGTGCTAAAGTCTC
						
					

						Genomic sequence
						
							CTTTTGTAGAAGAGCACTAGCACGATTATCCAAGTTCGGTGCACGCGGTAAAAACGTCTCTCGT
TCACCAAGGGTTGCTGGTGCAATTTTCGCTGTCAAGCTAAGTTTTGGATCTAATCGTATCTTCT
CCCAATTTCCATAGCCATACCAATGAATTCCAACCATCAATCTTGCATCATCAGCTAAACAGAT
ACAAGAATTATATGAGTATATATTTTTTTAGTAACATTTTCAACAAAGCAAAAGGTTTGACAGC
AATTACTTTCAGTCCAACCACAGCTTGCTGACCACTGTGGCTTTTTGTAAGGTGCCTGGATCCG
GTATTGTCTAACTGGATCTTTGTAACGTGCAATGCGCCTTGCCAGGAACTGTAGCTCTTCCACA
CGGGCTATCAACTCATGCGCCTTAACTGCTACACCAAAAAAATCCAACACTGTGCCCTGCATTT
AAAGTACAAATAACTGAGATTAAAGGCGATGAGAAGGCAAAGGTATCCAGGTAGAGGGAAAGTA
CAACGATTATACCTTGGCATCCATATTATTTTTAACAGCATCTTGACAACCCTCAATGAGTAGA
GTAAACAGCTCAAGCTGTTGATCAACCGAAGACTTTGCTATTGCACCACCAACATCATCCACGA
TTAACCCAATTTGGCTTGGGTTTCCAAATTTTTTAACCTAAAATGTTTACTTATCGGAGTAAGA
TGAAGCTGGGAAGTAATATTCAATCTACAACTTAATCATTTTGTGGAAAAAGTTGGGTGTCTCG
TAAAGTTCCCAGAAATCACAAGAGAAGAAACTTACACTACTACTACTTGATAACTTGCAAATCT
TAGTAATGCTAACTTTCAATAACTTGTCTAAGCAGAAGTTTTGCAATCTCTCACAAACCCAAAG
CAGAAGAGATAATAACATAACAGTTTTTTTTTTCTCGAAAACGCAGGAGAGCTGCATTTCATTT
CATTAAGGGGAAGAAAAAACAAACATAATAGCATGACTCTGGATATTGTAAATATAAAATCGCC
ACATAAAAGAAAAGAATATTGAGAACGGGTGCAGATTTACCGCTCGAACAAATCGGGTAGCATC
TTTCTTTGACAAATTTCCAAATGACCATTCTCGTACTTGATGTGCTGAACCATCTATGAGTGGT
AATGACACAGCTGTGTCCATTGTTCTGCTAGAACGCCTCCTTGGCTTTTCTTGTGCATCGATTC
CTCGCCTTTTCCTGTTGCTATTCTTATCAAGTTGGTGATCTTCAACATAGCTCTTCTTATTTCT
TGCAGCACGAGGTGCTAAAGTCTC
						
					

			
		

Sequences
Splice junction sequence	GTGCATCGATTCCTCGCCTTTTCCTGTTGCTATTCTTATCAAGTTGGTGATCTTCAACATAGCT CTTCTTATTTCTTGCAGCACGAGGTGCTAAAGTCTCcttttgtagaagagcactagcacgatta tccaagttcggtgcacgcggtaaaaacgtctctcgttcaccaagggttgctggtgcaattttcg ctgtcaag
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: 753 Transcript exons: 27828508-27828689,27828770-27828947,27829032-27829184,27 829572-27829811 CTTTTGTAGAAGAGCACTAGCACGATTATCCAAGTTCGGTGCACGCGGTAAAAACGTCTCTCGT TCACCAAGGGTTGCTGGTGCAATTTTCGCTGTCAAGCTAAGTTTTGGATCTAATCGTATCTTCT CCCAATTTCCATAGCCATACCAATGAATTCCAACCATCAATCTTGCATCATCAGTTTCAGTCCA ACCACAGCTTGCTGACCACTGTGGCTTTTTGTAAGGTGCCTGGATCCGGTATTGTCTAACTGGA TCTTTGTAACGTGCAATGCGCCTTGCCAGGAACTGTAGCTCTTCCACACGGGCTATCAACTCAT GCGCCTTAACTGCTACACCAAAAAAATCCAACACTGTGCCCTTGGCATCCATATTATTTTTAAC AGCATCTTGACAACCCTCAATGAGTAGAGTAAACAGCTCAAGCTGTTGATCAACCGAAGACTTT GCTATTGCACCACCAACATCATCCACGATTAACCCAATTTGGCTTGGGTTTCCAAATTTTTTAA CCGCTCGAACAAATCGGGTAGCATCTTTCTTTGACAAATTTCCAAATGACCATTCTCGTACTTG ATGTGCTGAACCATCTATGAGTGGTAATGACACAGCTGTGTCCATTGTTCTGCTAGAACGCCTC CTTGGCTTTTCTTGTGCATCGATTCCTCGCCTTTTCCTGTTGCTATTCTTATCAAGTTGGTGAT CTTCAACATAGCTCTTCTTATTTCTTGCAGCACGAGGTGCTAAAGTCTC
Genomic sequence	CTTTTGTAGAAGAGCACTAGCACGATTATCCAAGTTCGGTGCACGCGGTAAAAACGTCTCTCGT TCACCAAGGGTTGCTGGTGCAATTTTCGCTGTCAAGCTAAGTTTTGGATCTAATCGTATCTTCT CCCAATTTCCATAGCCATACCAATGAATTCCAACCATCAATCTTGCATCATCAGCTAAACAGAT ACAAGAATTATATGAGTATATATTTTTTTAGTAACATTTTCAACAAAGCAAAAGGTTTGACAGC AATTACTTTCAGTCCAACCACAGCTTGCTGACCACTGTGGCTTTTTGTAAGGTGCCTGGATCCG GTATTGTCTAACTGGATCTTTGTAACGTGCAATGCGCCTTGCCAGGAACTGTAGCTCTTCCACA CGGGCTATCAACTCATGCGCCTTAACTGCTACACCAAAAAAATCCAACACTGTGCCCTGCATTT AAAGTACAAATAACTGAGATTAAAGGCGATGAGAAGGCAAAGGTATCCAGGTAGAGGGAAAGTA CAACGATTATACCTTGGCATCCATATTATTTTTAACAGCATCTTGACAACCCTCAATGAGTAGA GTAAACAGCTCAAGCTGTTGATCAACCGAAGACTTTGCTATTGCACCACCAACATCATCCACGA TTAACCCAATTTGGCTTGGGTTTCCAAATTTTTTAACCTAAAATGTTTACTTATCGGAGTAAGA TGAAGCTGGGAAGTAATATTCAATCTACAACTTAATCATTTTGTGGAAAAAGTTGGGTGTCTCG TAAAGTTCCCAGAAATCACAAGAGAAGAAACTTACACTACTACTACTTGATAACTTGCAAATCT TAGTAATGCTAACTTTCAATAACTTGTCTAAGCAGAAGTTTTGCAATCTCTCACAAACCCAAAG CAGAAGAGATAATAACATAACAGTTTTTTTTTTCTCGAAAACGCAGGAGAGCTGCATTTCATTT CATTAAGGGGAAGAAAAAACAAACATAATAGCATGACTCTGGATATTGTAAATATAAAATCGCC ACATAAAAGAAAAGAATATTGAGAACGGGTGCAGATTTACCGCTCGAACAAATCGGGTAGCATC TTTCTTTGACAAATTTCCAAATGACCATTCTCGTACTTGATGTGCTGAACCATCTATGAGTGGT AATGACACAGCTGTGTCCATTGTTCTGCTAGAACGCCTCCTTGGCTTTTCTTGTGCATCGATTC CTCGCCTTTTCCTGTTGCTATTCTTATCAAGTTGGTGATCTTCAACATAGCTCTTCTTATTTCT TGCAGCACGAGGTGCTAAAGTCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.282903087

Conservation Information
Conserved circRNAs	NA
PMCS	0.282903087

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27829681-27828510(-)
						
						Potential amino acid sequence
						
							MDTAVSLPLIDGSAHQVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQ
QLELFTLLIEGCQDAVKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYR
IQAPYKKPQWSASCGWTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLP
RAPNLDNRASALLQKETLAPRAARNKKSYVEDHQLDKNSNRKRRGIDAQEKPRRRSSRTMDTAV
SLPLIDGSAHQVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQQLELF
TLLIEGCQDAVKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYRIQAPY
KKPQWSASCGWTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLPRAPNL
DNRASALLQKETLAPRAARNKKSYVEDHQLDKNSNRKRRGIDAQEKPRRRSSRTMDTAVSLPLI
DGSAHQVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQQLELFTLLIE
GCQDAVKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYRIQAPYKKPQW
SASCGWTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLPRAPNLDNRAS
ALLQKETLAPRAARNKKSYVEDHQLDKNSNRKRRGIDAQEKPRRRSSRTMDTAVSLPLIDGSAH
QVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQQLELFTLLIEGCQDA
VKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYRIQAPYKKPQWSASCG
WTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLPRAPNLDNRASALLQK
(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27829681-27828510(-)
Potential amino acid sequence	MDTAVSLPLIDGSAHQVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQ QLELFTLLIEGCQDAVKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYR IQAPYKKPQWSASCGWTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLP RAPNLDNRASALLQKETLAPRAARNKKSYVEDHQLDKNSNRKRRGIDAQEKPRRRSSRTMDTAV SLPLIDGSAHQVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQQLELF TLLIEGCQDAVKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYRIQAPY KKPQWSASCGWTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLPRAPNL DNRASALLQKETLAPRAARNKKSYVEDHQLDKNSNRKRRGIDAQEKPRRRSSRTMDTAVSLPLI DGSAHQVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQQLELFTLLIE GCQDAVKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYRIQAPYKKPQW SASCGWTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLPRAPNLDNRAS ALLQKETLAPRAARNKKSYVEDHQLDKNSNRKRRGIDAQEKPRRRSSRTMDTAVSLPLIDGSAH QVREWSFGNLSKKDATRFVRAVKKFGNPSQIGLIVDDVGGAIAKSSVDQQLELFTLLIEGCQDA VKNNMDAKGTVLDFFGVAVKAHELIARVEELQFLARRIARYKDPVRQYRIQAPYKKPQWSASCG WTETDDARLMVGIHWYGYGNWEKIRLDPKLSLTAKIAPATLGERETFLPRAPNLDNRASALLQK (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0660200_circ_g.3

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