Plant Circular RNA Database

Detail information of Os03g0246500_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os03g0246500_circ_g.5
					
						ID in PlantcircBase
						osa_circ_018838
					
						Alias
						Os_ciR2290
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 7745017-7747534  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0246500						
					
						Parent gene annotation
						
							Protein of unknown function DUF869, plant family protein. (Os03t
0246500-01);Non-protein coding transcript. (Os03t0246500-02);Non
-protein coding transcript. (Os03t0246500-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0246500_circ_g.6 Os03g0246500_circ_g.7 Os03g0246500_circ_g.8 						
					
						Support reads
						5/1
					
						Tissues
						root/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
						Os03t0246500-01:2

General Information
CircRNA Name	Os03g0246500_circ_g.5
ID in PlantcircBase	osa_circ_018838
Alias	Os_ciR2290
Organism	Oryza sativa
Position	chr3: 7745017-7747534 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0246500
Parent gene annotation	Protein of unknown function DUF869, plant family protein. (Os03t 0246500-01);Non-protein coding transcript. (Os03t0246500-02);Non -protein coding transcript. (Os03t0246500-03)
Parent gene strand	+
Alternative splicing	Os03g0246500_circ_g.6 Os03g0246500_circ_g.7 Os03g0246500_circ_g.8
Support reads	5/1
Tissues	root/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	Os03t0246500-01:2

			
						 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  
						
							TGCTAGGTTTTTCTTCTTACTTAATCCATTGACATGAAGGTATGAGAACGAGAGGAATTCAATG
TGTGTGGATGAGGATGCAGATACCAAAGCAAAGCAGgttgggagaaagctgaagcggaggcctc
agcactgaagcttcagctagaaactgttacattggctaagctagcggctgaggaaagagctgcc
catctgga

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							GTTGGGAGAAAGCTGAAGCGGAGGCCTCAGCACTGAAGCTTCAGCTAGAAACTGTTACATTGGC
TAAGCTAGCGGCTGAGGAAAGAGCTGCCCATCTGGATGGTGCTCTGAAAGAATGCATGAAGCAA
GTAAGGACTGTGAAAGAAGAAGGTGAGCAGAAGCTACATGATGTAGTCTTTGCAAAAACCAAAC
AGTGGGAGAAGATAAAGGCCGAGTTTGAAGCAAAGTTACTTGAGTTTGAACAGGAGCTCATTAG
GGCTGGTGCTGAGAATGATGCACTCTCAAGGTCACTCGAGGAACGGGGAGACCTTTTGATGAAG
ATTGATGAGGAAAAGGCTCGAGCAGAGGCTGAAATCGAAGTCTTGAAAAACACAATTCAGTCAG
GTGAAAGGGAAATTAATTCACTGAAATATGAAATTCATGTTGTTTCCAAAGAGCTTGAAATCCG
CAATGAGGAAAAGAACATGAGTGTGCGCTCAGCTGATGTTGCAACTAAACAGCACATGGAGGAT
GTAAAGAAAATATCAAAACTGGAAGCTGAATGCCAAAGATTACGGGGTCTTGTTCGAAAGAAGT
TACCAGGGCCTGCTGCATTAGCTCAAATGAAAATGGAAGTGGAGAGCTTGGGCAGAGATTATGG
AGAAAGCAGGTTGCGACGATCGCCTGCAAAGAATTCCAGCTTCCATCGTCCTATGTCCCCTATG
TCCCCTGTTCCTGATTATGCATTTGAAAACTTACAGCACATGCAGAAAGAGAATGAGTTTCTGA
CTGCACGTTTGTTATCCATGGAAGATGAAACCAAAATGCTAAAAGAGGCCTTGGCCAAAAGGAA
TAGTGAGCTGCAAACATCAAGAAACATGTATGCTAAGACAGCAGGCAAACTCCGTGGCTTGGAA
GTTCAAATGTTGACTGGTAGCCAACGTAAGAGTACTTCGAATCCCAACATGGATATCCACTTTG
ATGGTGCACTGAGTCAAAATGGAAGCAACCCACCTAGTATGACCTCCATGTCTGAAGATGGTGT
TGATGATGAAGGAAGTTGCACTGAATCTTGGGCCAATGCTCTGGTCTCTGAGCTCTCACACATC
AAGAAAGAGAAAGGAGCTAAGAGCAGTGTGACAGAAGGCTCCAATCGGTTGGAACTCATGGATG
ACTTCCTAGAGATGGAGAAACTAGCCTGTTTGTCATCTGAAGCAAATGGACATGTCAGTACTGT
TGAAAAAATGAAGATTGATGATACGGAAGCTTCTTTGTCTGGTATTACTGAAAGAGATGGTGTT
AAAGATTCGCAGTCAGTTTTGGCATTGCCAGGGACTCCATCTAATAAACTGCAGCTGTCTGACA
GCTCTCCACTCTTGAAACTACAGTCTAGAATATCTTCCTTGCTTGATTCTGAATCACCACAGAA
CAATGCTGGAAATATACTAGATAGTATCAGAAATATTCTAAAGGATATTGAAGATGAGGCAGAT
TCATCAAATGATAGCAAGACTCATCATGGTGACATGGTTGAAGTAGCTGACAATGGATCACTAA
TGAAGCATTCAAGCAGCGGGAGCAAGCATGCTATGGATCAAGAACTAGTCAATGCCATTTTAAA
GATTCAAGACTTCGTTAAGTCACTTGACCAAGAAGTGTCCAAGTTCCAAGGGCAGTCTTCAGAT
TGTGATGGTTTATGTGACAAAATACAGCAGTTCTCTGCACTAGTAGAGAAAGCTCTATCAAATG
AGAATGTTCTAAATGACATTGTTATGACGCTGTCTCTTATCTTGTCAGGAACCAGTGAGATTAA
GTTCATGATGTTGAAAGAGAACACCAAAGAAGCTGACAATAATAATTTGGATTATGTTGATAAA
GTGACTTTACTTGAAAATAAAGTGCAGCTTGAGCCACTAAAGGACAGCATTTCTGGTCCTTGCC
TTCCTCGTTCATCTTCTGATCCGGAGATTGAAGGTCCTACTGACTCTGGATGTGATGTCAAGAC
TGCTGTGCAGATATGCTCATCAGAGGAATTCGAGCAACTTAAATCTGAGAAGTTGAATTTGGAG
GCAGAATTATCAAAGTGCAATGAAGTTATAGAAGAGACAAAATTTAGGTTTAAGGAGTTGGAGA
AGAGCCTTGAAGAGTTGACATCCAAGTTGGTTGCCAGTGAGAAATCAAACAGCTTGGCTGAGAC
ACAGTTGAAGTGTATGGCTGAATCCTACAAGTCACTTGAGTCAAGGAAAGCTGAATTAGAAAAC
GAAATAAAAGTGCTGCAGTCCAAAATAGAAGTTTTGACAGCTGAACTTGATGATGAAAGACAAA
ATCATCAGGAGGATATAACAAGATATAGAGATCTCGAGGAGAAGATTGAAAGGTGAAACTGAAA
ATTTTTTTTTATTATTGATTAATAGTTGGTACAAAGATATCACTGCCCTCTGCTAGGTTTTTCT
TCTTACTTAATCCATTGACATGAAGGTATGAGAACGAGAGGAATTCAATGTGTGTGGATGAGGA
TGCAGATACCAAAGCAAAGCAG
						
					

			
		

Sequences
Splice junction sequence	TGCTAGGTTTTTCTTCTTACTTAATCCATTGACATGAAGGTATGAGAACGAGAGGAATTCAATG TGTGTGGATGAGGATGCAGATACCAAAGCAAAGCAGgttgggagaaagctgaagcggaggcctc agcactgaagcttcagctagaaactgttacattggctaagctagcggctgaggaaagagctgcc catctgga
Assembled circRNA sequence	NA 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	NA
Genomic sequence	GTTGGGAGAAAGCTGAAGCGGAGGCCTCAGCACTGAAGCTTCAGCTAGAAACTGTTACATTGGC TAAGCTAGCGGCTGAGGAAAGAGCTGCCCATCTGGATGGTGCTCTGAAAGAATGCATGAAGCAA GTAAGGACTGTGAAAGAAGAAGGTGAGCAGAAGCTACATGATGTAGTCTTTGCAAAAACCAAAC AGTGGGAGAAGATAAAGGCCGAGTTTGAAGCAAAGTTACTTGAGTTTGAACAGGAGCTCATTAG GGCTGGTGCTGAGAATGATGCACTCTCAAGGTCACTCGAGGAACGGGGAGACCTTTTGATGAAG ATTGATGAGGAAAAGGCTCGAGCAGAGGCTGAAATCGAAGTCTTGAAAAACACAATTCAGTCAG GTGAAAGGGAAATTAATTCACTGAAATATGAAATTCATGTTGTTTCCAAAGAGCTTGAAATCCG CAATGAGGAAAAGAACATGAGTGTGCGCTCAGCTGATGTTGCAACTAAACAGCACATGGAGGAT GTAAAGAAAATATCAAAACTGGAAGCTGAATGCCAAAGATTACGGGGTCTTGTTCGAAAGAAGT TACCAGGGCCTGCTGCATTAGCTCAAATGAAAATGGAAGTGGAGAGCTTGGGCAGAGATTATGG AGAAAGCAGGTTGCGACGATCGCCTGCAAAGAATTCCAGCTTCCATCGTCCTATGTCCCCTATG TCCCCTGTTCCTGATTATGCATTTGAAAACTTACAGCACATGCAGAAAGAGAATGAGTTTCTGA CTGCACGTTTGTTATCCATGGAAGATGAAACCAAAATGCTAAAAGAGGCCTTGGCCAAAAGGAA TAGTGAGCTGCAAACATCAAGAAACATGTATGCTAAGACAGCAGGCAAACTCCGTGGCTTGGAA GTTCAAATGTTGACTGGTAGCCAACGTAAGAGTACTTCGAATCCCAACATGGATATCCACTTTG ATGGTGCACTGAGTCAAAATGGAAGCAACCCACCTAGTATGACCTCCATGTCTGAAGATGGTGT TGATGATGAAGGAAGTTGCACTGAATCTTGGGCCAATGCTCTGGTCTCTGAGCTCTCACACATC AAGAAAGAGAAAGGAGCTAAGAGCAGTGTGACAGAAGGCTCCAATCGGTTGGAACTCATGGATG ACTTCCTAGAGATGGAGAAACTAGCCTGTTTGTCATCTGAAGCAAATGGACATGTCAGTACTGT TGAAAAAATGAAGATTGATGATACGGAAGCTTCTTTGTCTGGTATTACTGAAAGAGATGGTGTT AAAGATTCGCAGTCAGTTTTGGCATTGCCAGGGACTCCATCTAATAAACTGCAGCTGTCTGACA GCTCTCCACTCTTGAAACTACAGTCTAGAATATCTTCCTTGCTTGATTCTGAATCACCACAGAA CAATGCTGGAAATATACTAGATAGTATCAGAAATATTCTAAAGGATATTGAAGATGAGGCAGAT TCATCAAATGATAGCAAGACTCATCATGGTGACATGGTTGAAGTAGCTGACAATGGATCACTAA TGAAGCATTCAAGCAGCGGGAGCAAGCATGCTATGGATCAAGAACTAGTCAATGCCATTTTAAA GATTCAAGACTTCGTTAAGTCACTTGACCAAGAAGTGTCCAAGTTCCAAGGGCAGTCTTCAGAT TGTGATGGTTTATGTGACAAAATACAGCAGTTCTCTGCACTAGTAGAGAAAGCTCTATCAAATG AGAATGTTCTAAATGACATTGTTATGACGCTGTCTCTTATCTTGTCAGGAACCAGTGAGATTAA GTTCATGATGTTGAAAGAGAACACCAAAGAAGCTGACAATAATAATTTGGATTATGTTGATAAA GTGACTTTACTTGAAAATAAAGTGCAGCTTGAGCCACTAAAGGACAGCATTTCTGGTCCTTGCC TTCCTCGTTCATCTTCTGATCCGGAGATTGAAGGTCCTACTGACTCTGGATGTGATGTCAAGAC TGCTGTGCAGATATGCTCATCAGAGGAATTCGAGCAACTTAAATCTGAGAAGTTGAATTTGGAG GCAGAATTATCAAAGTGCAATGAAGTTATAGAAGAGACAAAATTTAGGTTTAAGGAGTTGGAGA AGAGCCTTGAAGAGTTGACATCCAAGTTGGTTGCCAGTGAGAAATCAAACAGCTTGGCTGAGAC ACAGTTGAAGTGTATGGCTGAATCCTACAAGTCACTTGAGTCAAGGAAAGCTGAATTAGAAAAC GAAATAAAAGTGCTGCAGTCCAAAATAGAAGTTTTGACAGCTGAACTTGATGATGAAAGACAAA ATCATCAGGAGGATATAACAAGATATAGAGATCTCGAGGAGAAGATTGAAAGGTGAAACTGAAA ATTTTTTTTTATTATTGATTAATAGTTGGTACAAAGATATCACTGCCCTCTGCTAGGTTTTTCT TCTTACTTAATCCATTGACATGAAGGTATGAGAACGAGAGGAATTCAATGTGTGTGGATGAGGA TGCAGATACCAAAGCAAAGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_014130 						
					
						PMCS
						0.40442129

Conservation Information
Conserved circRNAs	osi_circ_014130
PMCS	0.40442129

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7747477-7745029(+)
7745137-7745049(+)
						
						Potential amino acid sequence
						
							MRTRGIQCVWMRMQIPKQSRLGES*(+)
MKQVRTVKEEGEQKLHDVVFAKTKQWEKIKAEFEAKLLEFEQELIRAGAENDALSRSLEERGDL
LMKIDEEKARAEAEIEVLKNTIQSGEREINSLKYEIHVVSKELEIRNEEKNMSVRSADVATKQH
MEDVKKISKLEAECQRLRGLVRKKLPGPAALAQMKMEVESLGRDYGESRLRRSPAKNSSFHRPM
SPMSPVPDYAFENLQHMQKENEFLTARLLSMEDETKMLKEALAKRNSELQTSRNMYAKTAGKLR
GLEVQMLTGSQRKSTSNPNMDIHFDGALSQNGSNPPSMTSMSEDGVDDEGSCTESWANALVSEL
SHIKKEKGAKSSVTEGSNRLELMDDFLEMEKLACLSSEANGHVSTVEKMKIDDTEASLSGITER
DGVKDSQSVLALPGTPSNKLQLSDSSPLLKLQSRISSLLDSESPQNNAGNILDSIRNILKDIED
EADSSNDSKTHHGDMVEVADNGSLMKHSSSGSKHAMDQELVNAILKIQDFVKSLDQEVSKFQGQ
SSDCDGLCDKIQQFSALVEKALSNENVLNDIVMTLSLILSGTSEIKFMMLKENTKEADNNNLDY
VDKVTLLENKVQLEPLKDSISGPCLPRSSSDPEIEGPTDSGCDVKTAVQICSSEEFEQLKSEKL
NLEAELSKCNEVIEETKFRFKELEKSLEELTSKLVASEKSNSLAETQLKCMAESYKSLESRKAE
LENEIKVLQSKIEVLTAELDDERQNHQEDITRYRDLEEKIERYENERNSMCVDEDADTKAKQVG
RKLKRRPQH*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7747477-7745029(+) 7745137-7745049(+)
Potential amino acid sequence	MRTRGIQCVWMRMQIPKQSRLGES(+) MKQVRTVKEEGEQKLHDVVFAKTKQWEKIKAEFEAKLLEFEQELIRAGAENDALSRSLEERGDL LMKIDEEKARAEAEIEVLKNTIQSGEREINSLKYEIHVVSKELEIRNEEKNMSVRSADVATKQH MEDVKKISKLEAECQRLRGLVRKKLPGPAALAQMKMEVESLGRDYGESRLRRSPAKNSSFHRPM SPMSPVPDYAFENLQHMQKENEFLTARLLSMEDETKMLKEALAKRNSELQTSRNMYAKTAGKLR GLEVQMLTGSQRKSTSNPNMDIHFDGALSQNGSNPPSMTSMSEDGVDDEGSCTESWANALVSEL SHIKKEKGAKSSVTEGSNRLELMDDFLEMEKLACLSSEANGHVSTVEKMKIDDTEASLSGITER DGVKDSQSVLALPGTPSNKLQLSDSSPLLKLQSRISSLLDSESPQNNAGNILDSIRNILKDIED EADSSNDSKTHHGDMVEVADNGSLMKHSSSGSKHAMDQELVNAILKIQDFVKSLDQEVSKFQGQ SSDCDGLCDKIQQFSALVEKALSNENVLNDIVMTLSLILSGTSEIKFMMLKENTKEADNNNLDY VDKVTLLENKVQLEPLKDSISGPCLPRSSSDPEIEGPTDSGCDVKTAVQICSSEEFEQLKSEKL NLEAELSKCNEVIEETKFRFKELEKSLEELTSKLVASEKSNSLAETQLKCMAESYKSLESRKAE LENEIKVLQSKIEVLTAELDDERQNHQEDITRYRDLEEKIERYENERNSMCVDEDADTKAKQVG RKLKRRPQH(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0246500_circ_g.5

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