Plant Circular RNA Database

Detail information of Os05g0227700_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os05g0227700_circ_g.4
					
						ID in PlantcircBase
						osa_circ_027085
					
						Alias
						NA, 
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 7763720-7765228  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI-long
					
						Parent gene
						
							Os05g0227700						
					
						Parent gene annotation
						
							Similar to Eukaryotic translation initiation factor 3 subunit 6-
interacting protein. (Os05t0227700-01);Similar to Eukaryotic tra
nslation initiation factor 3 subunit 6-interacting protein. (Os0
5t0227700-02);Similar to Eukaryotic translation initiation facto
r 3 subunit 6-interacting protein. (Os05t0227700-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0227700_circ_g.1 Os05g0227700_circ_g.2 Os05g0227700_circ_g.3 Os05g0227700_circ_g.5 Os05g0227700_circ_g.6 						
					
						Support reads
						1
					
						Tissues
						shoot, 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
						Os05t0227700-01:3
Os05t0227700-03:3
Os05t0227700-02:3

General Information
CircRNA Name	Os05g0227700_circ_g.4
ID in PlantcircBase	osa_circ_027085
Alias	NA,
Organism	Oryza sativa
Position	chr5: 7763720-7765228 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI-long
Parent gene	Os05g0227700
Parent gene annotation	Similar to Eukaryotic translation initiation factor 3 subunit 6- interacting protein. (Os05t0227700-01);Similar to Eukaryotic tra nslation initiation factor 3 subunit 6-interacting protein. (Os0 5t0227700-02);Similar to Eukaryotic translation initiation facto r 3 subunit 6-interacting protein. (Os05t0227700-03)
Parent gene strand	-
Alternative splicing	Os05g0227700_circ_g.1 Os05g0227700_circ_g.2 Os05g0227700_circ_g.3 Os05g0227700_circ_g.5 Os05g0227700_circ_g.6
Support reads	1
Tissues	shoot, 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	Os05t0227700-01:3 Os05t0227700-03:3 Os05t0227700-02:3

			
						 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  
						
							CTTAAGTAGCTGGTCATACTGGGGGGAATTCTGGTGGTATTGCTTACACTTCAGGATATACAAC
AGAATTTTGTTGAATTCACGTATACCATCAATATACctcatcaatatagaagtcaaagtctgca
ctggatatgacctttccgtcactgtcgattgaatgcattttgtgcttgtatgtcataagaattg
tcctgcca

									
								

					

						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: 583
Transcript exons: 7763720-7763813,7763897-7764045,7764889-7765228
CTCATCAATATAGAAGTCAAAGTCTGCACTGGATATGACCTTTCCGTCACTGTCGATTGAATGC
ATTTTGTGCTTGTATGTCATAAGAATTGTCCTTAGTGTAACCTCATCCACATCCATGTATTTGG
CAAGTTTACCAATTGTTATCGTTGAATACAACTTGAGATAGCTTCGAATACCAGAGAGCAACTG
TTGTTGTTTCACTTCATAAAGAAATAGTTTCAACTGAAGACGATAAGCATCCTGGTTGTAGTTT
GTGTATGGCTCTCGTAGAACTGGAGGCGACGCAGTAATGAACTTGGGGCAGGCATAGGAAAAGA
GTTCATCATAAATAGCATATGCCTCATCATCATACCTATGCATCTTTGTCATTTTGTCCCCATA
CTTTTCCTTCAGCTGAGTGCCAACGTTTTCATCTATGAGCTTGTCCTGTGGACACAATGAGAGG
CAGATCGCCAATAGTGCATACATCTGCTCATTCTTCTTAAGTAGCTGGTCATACTGGGGGGAAT
TCTGGTGGTATTGCTTACACTTCAGGATATACAACAGAATTTTGTTGAATTCACGTATACCATC
AATATAC
						
					

						Genomic sequence
						
							CTCATCAATATAGAAGTCAAAGTCTGCACTGGATATGACCTTTCCGTCACTGTCGATTGAATGC
ATTTTGTGCTTGTATGTCATAAGAATTGTCCTGCCATCATATAACAATTATGTTATCATGAATG
AGAAAAGTCAAGTATTAGCAGTAAAATATTATATTAAAAATACACAGACCTTAGTGTAACCTCA
TCCACATCCATGTATTTGGCAAGTTTACCAATTGTTATCGTTGAATACAACTTGAGATAGCTTC
GAATACCAGAGAGCAACTGTTGTTGTTTCACTTCATAAAGAAATAGTTTCAACTGAAGACGATA
AGCATCCTGTTGAATGATACATAGTTAAATAATTTGGTGTGGATACAAGAAAAATAAAGCCTGC
TTTTTGACAAGTGAAACTCACAAAAAAACTTGAAATAAACAGTATTAAAATAAAAACTATGTTT
TCATAACCAAGTGCATGGTAGAACTGAACAAAAAGAATATCACTGATACTGCATTATTGGATTA
TCAGAATTTAGTAGTAATGTCTGAGCAAGTAGATACCCAAAGCATAGGCGGGATCTAGGGGGTG
GTCCCGGGACCACCCAAGAAAAACCCTAGCCCAATGCATATATACATATGTGAAAAGAAACTTG
TGGAAAAAGAAAAAAAAATAACTCCATTATTAATATATTGTGATGTACATTTAATCCATTTATA
CTTCTAACCTTGTTATATATATATATATATATATATATATATATATATATATATATATATATAT
ATATATATATATATATATATATATATAACTTGGACCACCCATATAAAAATACTAGATACGCCAT
GGACCCAAAGATGTGCATTTCAGGTGTCACATAAGATGCTAAGTAAAGATACTCAAAGTAACTG
ACATGCAACTTCCGCAAATTGTAATGTTAATGCATAACAAGGGAAATAGTAAAATGAACCTCAA
CGTTCAGCTGCTCAATTGTCATTTCAACAATATAAGGCAGTAAGGCACAAACAAACAATAATTC
AAAAAAATAAAACTCCTACATCACTTGAGATATTACAGACAATTTGATACACCTAGAATGCTTT
GGTCCTAGCCCAATTAAGGGTGTAGTATAGTTTCAAAAAAAGCATAAAAAAGACCACCCCAATC
TTTACTTTAAGTAATACCTGGTTGTAGTTTGTGTATGGCTCTCGTAGAACTGGAGGCGACGCAG
TAATGAACTTGGGGCAGGCATAGGAAAAGAGTTCATCATAAATAGCATATGCCTCATCATCATA
CCTATGCATCTTTGTCATTTTGTCCCCATACTTTTCCTTCAGCTGAGTGCCAACGTTTTCATCT
ATGAGCTTGTCCTGTGGACACAATGAGAGGCAGATCGCCAATAGTGCATACATCTGCTCATTCT
TCTTAAGTAGCTGGTCATACTGGGGGGAATTCTGGTGGTATTGCTTACACTTCAGGATATACAA
CAGAATTTTGTTGAATTCACGTATACCATCAATATAC
						
					

			
		

Sequences
Splice junction sequence	CTTAAGTAGCTGGTCATACTGGGGGGAATTCTGGTGGTATTGCTTACACTTCAGGATATACAAC AGAATTTTGTTGAATTCACGTATACCATCAATATACctcatcaatatagaagtcaaagtctgca ctggatatgacctttccgtcactgtcgattgaatgcattttgtgcttgtatgtcataagaattg tcctgcca
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: 583 Transcript exons: 7763720-7763813,7763897-7764045,7764889-7765228 CTCATCAATATAGAAGTCAAAGTCTGCACTGGATATGACCTTTCCGTCACTGTCGATTGAATGC ATTTTGTGCTTGTATGTCATAAGAATTGTCCTTAGTGTAACCTCATCCACATCCATGTATTTGG CAAGTTTACCAATTGTTATCGTTGAATACAACTTGAGATAGCTTCGAATACCAGAGAGCAACTG TTGTTGTTTCACTTCATAAAGAAATAGTTTCAACTGAAGACGATAAGCATCCTGGTTGTAGTTT GTGTATGGCTCTCGTAGAACTGGAGGCGACGCAGTAATGAACTTGGGGCAGGCATAGGAAAAGA GTTCATCATAAATAGCATATGCCTCATCATCATACCTATGCATCTTTGTCATTTTGTCCCCATA CTTTTCCTTCAGCTGAGTGCCAACGTTTTCATCTATGAGCTTGTCCTGTGGACACAATGAGAGG CAGATCGCCAATAGTGCATACATCTGCTCATTCTTCTTAAGTAGCTGGTCATACTGGGGGGAAT TCTGGTGGTATTGCTTACACTTCAGGATATACAACAGAATTTTGTTGAATTCACGTATACCATC AATATAC
Genomic sequence	CTCATCAATATAGAAGTCAAAGTCTGCACTGGATATGACCTTTCCGTCACTGTCGATTGAATGC ATTTTGTGCTTGTATGTCATAAGAATTGTCCTGCCATCATATAACAATTATGTTATCATGAATG AGAAAAGTCAAGTATTAGCAGTAAAATATTATATTAAAAATACACAGACCTTAGTGTAACCTCA TCCACATCCATGTATTTGGCAAGTTTACCAATTGTTATCGTTGAATACAACTTGAGATAGCTTC GAATACCAGAGAGCAACTGTTGTTGTTTCACTTCATAAAGAAATAGTTTCAACTGAAGACGATA AGCATCCTGTTGAATGATACATAGTTAAATAATTTGGTGTGGATACAAGAAAAATAAAGCCTGC TTTTTGACAAGTGAAACTCACAAAAAAACTTGAAATAAACAGTATTAAAATAAAAACTATGTTT TCATAACCAAGTGCATGGTAGAACTGAACAAAAAGAATATCACTGATACTGCATTATTGGATTA TCAGAATTTAGTAGTAATGTCTGAGCAAGTAGATACCCAAAGCATAGGCGGGATCTAGGGGGTG GTCCCGGGACCACCCAAGAAAAACCCTAGCCCAATGCATATATACATATGTGAAAAGAAACTTG TGGAAAAAGAAAAAAAAATAACTCCATTATTAATATATTGTGATGTACATTTAATCCATTTATA CTTCTAACCTTGTTATATATATATATATATATATATATATATATATATATATATATATATATAT ATATATATATATATATATATATATATAACTTGGACCACCCATATAAAAATACTAGATACGCCAT GGACCCAAAGATGTGCATTTCAGGTGTCACATAAGATGCTAAGTAAAGATACTCAAAGTAACTG ACATGCAACTTCCGCAAATTGTAATGTTAATGCATAACAAGGGAAATAGTAAAATGAACCTCAA CGTTCAGCTGCTCAATTGTCATTTCAACAATATAAGGCAGTAAGGCACAAACAAACAATAATTC AAAAAAATAAAACTCCTACATCACTTGAGATATTACAGACAATTTGATACACCTAGAATGCTTT GGTCCTAGCCCAATTAAGGGTGTAGTATAGTTTCAAAAAAAGCATAAAAAAGACCACCCCAATC TTTACTTTAAGTAATACCTGGTTGTAGTTTGTGTATGGCTCTCGTAGAACTGGAGGCGACGCAG TAATGAACTTGGGGCAGGCATAGGAAAAGAGTTCATCATAAATAGCATATGCCTCATCATCATA CCTATGCATCTTTGTCATTTTGTCCCCATACTTTTCCTTCAGCTGAGTGCCAACGTTTTCATCT ATGAGCTTGTCCTGTGGACACAATGAGAGGCAGATCGCCAATAGTGCATACATCTGCTCATTCT TCTTAAGTAGCTGGTCATACTGGGGGGAATTCTGGTGGTATTGCTTACACTTCAGGATATACAA CAGAATTTTGTTGAATTCACGTATACCATCAATATAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.167675486

Conservation Information
Conserved circRNAs	NA
PMCS	0.167675486

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7765065-7763776(+)
7765118-7765222(-)
7763726-7765222(-)
						
						Potential amino acid sequence
						
							MSLSCGHNERQIANSAYICSFFLSSWSYWGEFWWYCLHFRIYNRILLNSRIPSIYLINIEVKVC
TGYDLSVTVD*(+)
MYALLAICLSLCPQDKLIDENVGTQLKEKYGDKMTKMHRYDDEAYAIYDELFSYACPKFITASP
PVLREPYTNYNQDAYRLQLKLFLYEVKQQQLLSGIRSYLKLYSTITIGKLAKYMDVDEVTLRTI
LMTYKHKMHSIDSDGKVISSADFDFYIDEVY*(-)
MRYIDGIREFNKILLYILKCKQYHQNSPQYDQLLKKNEQMYALLAICLSLCPQDKLIDENVGTQ
LKEKYGDKMTKMHRYDDEAYAIYDELFSYACPKFITASPPVLREPYTNYNQDAYRLQLKLFLYE
VKQQQLLSGIRSYLKLYSTITIGKLAKYMDVDEVTLRTILMTYKHKMHSIDSDGKVISSADFDF
YIDEVY*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7765065-7763776(+) 7765118-7765222(-) 7763726-7765222(-)
Potential amino acid sequence	MSLSCGHNERQIANSAYICSFFLSSWSYWGEFWWYCLHFRIYNRILLNSRIPSIYLINIEVKVC TGYDLSVTVD(+) MYALLAICLSLCPQDKLIDENVGTQLKEKYGDKMTKMHRYDDEAYAIYDELFSYACPKFITASP PVLREPYTNYNQDAYRLQLKLFLYEVKQQQLLSGIRSYLKLYSTITIGKLAKYMDVDEVTLRTI LMTYKHKMHSIDSDGKVISSADFDFYIDEVY(-) MRYIDGIREFNKILLYILKCKQYHQNSPQYDQLLKKNEQMYALLAICLSLCPQDKLIDENVGTQ LKEKYGDKMTKMHRYDDEAYAIYDELFSYACPKFITASPPVLREPYTNYNQDAYRLQLKLFLYE VKQQQLLSGIRSYLKLYSTITIGKLAKYMDVDEVTLRTILMTYKHKMHSIDSDGKVISSADFDF YIDEVY*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017; this study

circRNA

Detail information of Os05g0227700_circ_g.4

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