Plant Circular RNA Database

Detail information of Os05g0169900_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0169900_circ_g.1
					
						ID in PlantcircBase
						osa_circ_026823
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 4181617-4182424  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0169800						
					
						Parent gene annotation
						
							Similar to Carboxyl-terminal proteinase. (Os05t0169800-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						4
					
						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
						Os05t0169900-01:3
Os05t0169800-00:3
Os05t0169900-01:3

General Information
CircRNA Name	Os05g0169900_circ_g.1
ID in PlantcircBase	osa_circ_026823
Alias	NA
Organism	Oryza sativa
Position	chr5: 4181617-4182424 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0169800
Parent gene annotation	Similar to Carboxyl-terminal proteinase. (Os05t0169800-00)
Parent gene strand	-
Alternative splicing	NA
Support reads	4
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	Os05t0169900-01:3 Os05t0169800-00:3 Os05t0169900-01:3

			
						 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  
						
							AGAGGCTGAACTCCGCCGGCGACGCCACCTTCGCCGGCCACACGTTCAGGCTCGCCTTCGCCCC
GTAGAATTGCCCCCCGCTCATGTACCCCACCGCATGcttccaaatgaggagggtgatgtcgaac
tggcggccggcgaaggaggagatgggggagatggcggcgcccatggcgatccggctgttggtct
ggacgaac

						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: 366
Transcript exons: 4181617-4181763,4181875-4181928,4182260-4182424
CTTCCAAATGAGGAGGGTGATGTCGAACTGGCGGCCGGCGAAGGAGGAGATGGGGGAGATGGCG
GCGCCCATGGCGATCCGGCTGTTGGTCTGGACGAACCCTGAGCAGTGCAGGTTGTAGCAACCCG
TCTCCTGGTACGCATCATTTGTCCAATACGTGAAGAACCTTGGGTTGTTGTCACCGTACAGCTG
AGGGCTCACCTGCCATCCGGCCTCGATGGTGTTGAGGTCATTGCCGAAGGAGCCGGAGATGAGC
CAGATCTGGGAGAGGCTGAACTCCGCCGGCGACGCCACCTTCGCCGGCCACACGTTCAGGCTCG
CCTTCGCCCCGTAGAATTGCCCCCCGCTCATGTACCCCACCGCATG
						
						Genomic sequence
						
							CTTCCAAATGAGGAGGGTGATGTCGAACTGGCGGCCGGCGAAGGAGGAGATGGGGGAGATGGCG
GCGCCCATGGCGATCCGGCTGTTGGTCTGGACGAACCCTGAGCAGTGCAGGTTGTAGCAACCCG
TCTCCTGGTACGCATCATTCTGCACAATGCATCATTCTTCAGTAACTTGTTCTTTGAACTGACT
GATCTATCTCTCTTCTAATACTGAAACACTAGGAACAGATTACTACTTTACTAGCAAAGAACTT
ACTGTCCAATACGTGAAGAACCTTGGGTTGTTGTCACCGTACAGCTGAGGGCTCACCTGAAAAT
TCATCAGAAAGATACAGGTAGCTAGATACGATCAGTATTCAGAGTTGAGAGTTGAGAGCAATGG
CAATCTCTGAAATTGGCTACGCCTGAATAAGTTTAAGAAAATGTAGCGTTGGTTTCAGGGTTAA
CGATCCCGATACCGGATCAAAATCCGCTCACGAGCGGTATCCACGGAATCCGTCGATAAACCGA
TAAAATCCGAATGATCAGTATGCAGAGCTGAGAGTAAAATGTAATCTCTGAAACTGGCTACTAG
CTAGCTAGGCCTGATTGACTGAACAAGTTTCAGAAAAGGAGGAGAGAAAGAAAAGAAAATGTAG
CACCTGCCATCCGGCCTCGATGGTGTTGAGGTCATTGCCGAAGGAGCCGGAGATGAGCCAGATC
TGGGAGAGGCTGAACTCCGCCGGCGACGCCACCTTCGCCGGCCACACGTTCAGGCTCGCCTTCG
CCCCGTAGAATTGCCCCCCGCTCATGTACCCCACCGCATG

Sequences
Splice junction sequence	AGAGGCTGAACTCCGCCGGCGACGCCACCTTCGCCGGCCACACGTTCAGGCTCGCCTTCGCCCC GTAGAATTGCCCCCCGCTCATGTACCCCACCGCATGcttccaaatgaggagggtgatgtcgaac tggcggccggcgaaggaggagatgggggagatggcggcgcccatggcgatccggctgttggtct ggacgaac
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: 366 Transcript exons: 4181617-4181763,4181875-4181928,4182260-4182424 CTTCCAAATGAGGAGGGTGATGTCGAACTGGCGGCCGGCGAAGGAGGAGATGGGGGAGATGGCG GCGCCCATGGCGATCCGGCTGTTGGTCTGGACGAACCCTGAGCAGTGCAGGTTGTAGCAACCCG TCTCCTGGTACGCATCATTTGTCCAATACGTGAAGAACCTTGGGTTGTTGTCACCGTACAGCTG AGGGCTCACCTGCCATCCGGCCTCGATGGTGTTGAGGTCATTGCCGAAGGAGCCGGAGATGAGC CAGATCTGGGAGAGGCTGAACTCCGCCGGCGACGCCACCTTCGCCGGCCACACGTTCAGGCTCG CCTTCGCCCCGTAGAATTGCCCCCCGCTCATGTACCCCACCGCATG
Genomic sequence	CTTCCAAATGAGGAGGGTGATGTCGAACTGGCGGCCGGCGAAGGAGGAGATGGGGGAGATGGCG GCGCCCATGGCGATCCGGCTGTTGGTCTGGACGAACCCTGAGCAGTGCAGGTTGTAGCAACCCG TCTCCTGGTACGCATCATTCTGCACAATGCATCATTCTTCAGTAACTTGTTCTTTGAACTGACT GATCTATCTCTCTTCTAATACTGAAACACTAGGAACAGATTACTACTTTACTAGCAAAGAACTT ACTGTCCAATACGTGAAGAACCTTGGGTTGTTGTCACCGTACAGCTGAGGGCTCACCTGAAAAT TCATCAGAAAGATACAGGTAGCTAGATACGATCAGTATTCAGAGTTGAGAGTTGAGAGCAATGG CAATCTCTGAAATTGGCTACGCCTGAATAAGTTTAAGAAAATGTAGCGTTGGTTTCAGGGTTAA CGATCCCGATACCGGATCAAAATCCGCTCACGAGCGGTATCCACGGAATCCGTCGATAAACCGA TAAAATCCGAATGATCAGTATGCAGAGCTGAGAGTAAAATGTAATCTCTGAAACTGGCTACTAG CTAGCTAGGCCTGATTGACTGAACAAGTTTCAGAAAAGGAGGAGAGAAAGAAAAGAAAATGTAG CACCTGCCATCCGGCCTCGATGGTGTTGAGGTCATTGCCGAAGGAGCCGGAGATGAGCCAGATC TGGGAGAGGCTGAACTCCGCCGGCGACGCCACCTTCGCCGGCCACACGTTCAGGCTCGCCTTCG CCCCGTAGAATTGCCCCCCGCTCATGTACCCCACCGCATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015950 osi_circ_015949 						
					
						PMCS
						0.363181714

Conservation Information
Conserved circRNAs	osi_circ_015950 osi_circ_015949
PMCS	0.363181714

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4182423-4181718(+)
4182409-4181734(+)
4182411-4181619(-)
4181764-4182408(-)
						
						Potential amino acid sequence
						
							MLPNEEGDVELAAGEGGDGGDGGAHGDPAVGLDEP*(+)
MYPTACFQMRRVMSNWRPAKEEMGEMAAPMAIRLLVWTNPEQCRL*(+)
MSGGQFYGAKASLNVWPAKVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFF
TYWTNDAYQETGCYNLHCSGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWKHAVGYMSGGQF
YGAKASLNVWPAKVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFFTYWTND
AYQETGCYNLHCSGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWKHAVGYMSGGQFYGAKAS
LNVWPAKVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFFTYWTNDAYQETG
CYNLHCSGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWKHAVGYMSGGQFYGAKASLNVWPA
KVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFFTYWTNDAYQETGCYNLHC
SGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWK(-)
MMRTRRRVATTCTAQGSSRPTAGSPWAPPSPPSPPSPAASSTSPSSFGSMRWGT*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4182423-4181718(+) 4182409-4181734(+) 4182411-4181619(-) 4181764-4182408(-)
Potential amino acid sequence	MLPNEEGDVELAAGEGGDGGDGGAHGDPAVGLDEP(+) MYPTACFQMRRVMSNWRPAKEEMGEMAAPMAIRLLVWTNPEQCRL(+) MSGGQFYGAKASLNVWPAKVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFF TYWTNDAYQETGCYNLHCSGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWKHAVGYMSGGQF YGAKASLNVWPAKVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFFTYWTND AYQETGCYNLHCSGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWKHAVGYMSGGQFYGAKAS LNVWPAKVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFFTYWTNDAYQETG CYNLHCSGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWKHAVGYMSGGQFYGAKASLNVWPA KVASPAEFSLSQIWLISGSFGNDLNTIEAGWQVSPQLYGDNNPRFFTYWTNDAYQETGCYNLHC SGFVQTNSRIAMGAAISPISSFAGRQFDITLLIWK(-) MMRTRRRVATTCTAQGSSRPTAGSPWAPPSPPSPPSPAASSTSPSSFGSMRWGT*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0169900_circ_g.1

Address

Any questions?

Supported by