Plant Circular RNA Database

Detail information of Os06g0487900_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0487900_circ_g.2
					
						ID in PlantcircBase
						osa_circ_030899
					
						Alias
						Os_ciR10378
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 16736212-16738160  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os06g0487900						
					
						Parent gene annotation
						
							SUMO (Small Ubiquitin-like Modifier) Protease, Salt tolerance (O
s06t0487900-01);Hypothetical conserved gene. (Os06t0487900-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0487900_circ_g.3 Os06g0487900_circ_g.4 Os06g0487900_circ_g.5 						
					
						Support reads
						2
					
						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
						Os06t0487900-02:4
Os06t0487900-01:4

General Information
CircRNA Name	Os06g0487900_circ_g.2
ID in PlantcircBase	osa_circ_030899
Alias	Os_ciR10378
Organism	Oryza sativa
Position	chr6: 16736212-16738160 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Os06g0487900
Parent gene annotation	SUMO (Small Ubiquitin-like Modifier) Protease, Salt tolerance (O s06t0487900-01);Hypothetical conserved gene. (Os06t0487900-02)
Parent gene strand	-
Alternative splicing	Os06g0487900_circ_g.3 Os06g0487900_circ_g.4 Os06g0487900_circ_g.5
Support reads	2
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	Os06t0487900-02:4 Os06t0487900-01:4

			
						 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  
						
							CTTTGATGTCAAGGCTTCAAGTTTGCTGAAGAAGTATGTATTGAAAATATGATACTTGCCTCCA
AGCCTACTTGTCGATGGCATTTGTCCCATTAGGTACtgtaactgctttcttcttaattttccga
ggaaggttcttccacactgattcatgtagatgacaatcttctaaagaaccagttttattcaggt
agttccat

									
								

					

						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: 374
Transcript exons: 16736212-16736326,16736650-16736772,16736965-16737058,16
738119-16738160
TGTAACTGCTTTCTTCTTAATTTTCCGAGGAAGGTTCTTCCACACTGATTCATGTAGATGACAA
TCTTCTAAAGAACCAGTTTTATTCAGGTAGTTCCATTCTTCTTTAAGGAATCTCTCAACGGTGC
TGAAAATAAATCTGCTGCTATGAAACTTCAGTGAATCCAAATGAAATATGGTGGGCCCTGATTG
GTCTTCCTTTGCAGGCATACATATAATGACCAAGCTCCAGTGTGCGTCTGCATGCACAGGAATT
ATTATGTATGCCTTTTTAAATATATCTACACCTTTCCACCATCTTCTCAGATTCAAGAAATAAG
CATCATTGTCCACCTCCAAGCCTACTTGTCGATGGCATTTGTCCCATTAGGTAC
Transcript length: 433
Transcript exons: 16736212-16736326,16736650-16736772,16736965-16737059,16
738061-16738160
TGTAACTGCTTTCTTCTTAATTTTCCGAGGAAGGTTCTTCCACACTGATTCATGTAGATGACAA
TCTTCTAAAGAACCAGTTTTATTCAGGTAGTTCCATTCTTCTTTAAGGAATCTCTCAACGGTGC
TGAAAATAAATCTGCTGCTATGAAACTTCAGTGAATCCAAATGAAATATGGTGGGCCCTGATTG
GTCTTCCTTTGCAGGCATACATATAATGACCAAGCTCCAGTGTGCGTCTGCATGCACAGGAATT
ATTATGTATGCCTTTTTAAATATATCTACACCTTTCCACCATCTTCTCAGATTCAAGAAATAAG
CATCATTGTCCACCTTTGATGTCAAGGCTTCAAGTTTGCTGAAGAAGTATGTATTGAAAATATG
ATACTTGCCTCCAAGCCTACTTGTCGATGGCATTTGTCCCATTAGGTAC
						
					

						Genomic sequence
						
							TGTAACTGCTTTCTTCTTAATTTTCCGAGGAAGGTTCTTCCACACTGATTCATGTAGATGACAA
TCTTCTAAAGAACCAGTTTTATTCAGGTAGTTCCATTCTTCTTTAAGGAATCTGTAAACAACTT
CAAGGTGTAAGAAAGCACTAAAAATAATCTAGCTTAAACTGAGTATCAAACAATTTCATACCCA
TATAAGCAGGAGGAATAAAAAGGCATGCACCAAATAACAGTATACAGATACCAGAAGCTAAGCT
TCTACCAATTGCAGAAGTGCAGTTATTGGGAAGTTGGGGAACTCAATTATGAAAAAAGAAAAAA
GAACATGTTGAAAAAATGTTGGCCTTTATCACATGTATTTGTGTACTTAAGAGAAAAAAGGTGG
TACACCAAATAACACACAACATACAAATTCTCAGAAGTTTTTTGGACCACTTGCCTCTCAACGG
TGCTGAAAATAAATCTGCTGCTATGAAACTTCAGTGAATCCAAATGAAATATGGTGGGCCCTGA
TTGGTCTTCCTTTGCAGGCATACATATAATGACCAAGCTCCAGTGTGCGCTGACCAATACAATA
CAATATACTGTAAGGAATAGCCGAATAGGTAGCGTTGCATAGATAGGTTAAGATATGCATGTGA
TCAGCTCAGGTCCCAACTCAGGAGTTGGGACTTGGGACCTGAGCTCATGAGTTGGTAACAAATA
ATTGTTGTATTCCTGATGACAACAAAAAGAAGGCAACAAAATTGCTTACTCTGCATGCACAGGA
ATTATTATGTATGCCTTTTTAAATATATCTACACCTTTCCACCATCTTCTCAGATTCAAGAAAT
AAGCATCATTGTCCACCTTCAGAGTATGAATACAAAAAAAATTAAAGGAATAACCATACAAAAT
AAACATCACATGGATTTTTTTATAAAAAAATCAAAATGGTGAACTAACATCAATTTTTCATTTA
TGAAAAAGTAATAAAAAAAATAGGTACTACCTCCGTCCCAGAATAGGTTCACTTTTATACAAGA
ATCTGGATATAGGCTATGTCTAGATTCGTGTAGAAAAGTGGAGTTATTTTGGGACGGAGAGAGT
ATTAGCTAACAGTAGCATGAAATTAAACATAATTTATGCATGATACATGTAGCCAGCAGTTGCT
ACATTAGGACAAAGAAAAAGGTGTTTATGGCTTGGGACTGAGGGCTAAAAATTGGTTAGATGGA
GGCGTAGTTACCCTCTAGCTTGTAGGAGATTCAATCCTTTGTGATACGACTGATAAACCAGCTA
AGTGGACATTAGTCAAGAGTTTATCTCTTACGTAACTTAGAGAAGCTAAACTAGCTCCCTCATA
CAGATGGTCTACCAACTCCAAACCAAATCTAAGAGGCAACAATTGATTGGGAACTAGACAACCT
TATGCATAACGACTTATGCCAAACTAGCTACTCTTAGTGAATTATCTGAATCCTAGCCAGTTGT
ACCTTATGAATTGACAAGCTAGCTGCAACCAAAATTACAAGTGCTACCACTGCTGCTTTGTCTA
CATAACTGCTGTCCACAAGGCATGAACTCCATAACAACAATTACGAACTAAATACCTAAAACAC
CAGTAAGATTGAATAGAACATATACATATATGGTTAGTCTTGTACTCGTTTCTCTTGTCCATGT
TGAATTATAGCTATTCATCTTTCTAGGTGCAAAATTCAAGATCTAATATGAAAGATGAACTAGA
ATACCCCGCAAAAAAAAATAGAAAAGGAACAAGAAAAGATAGCAAATCTATCAATCACATTATA
GCATATTATTTTTTTAAGAAATAAAGTAAATGTTAAGAATCTAATATAGGAAAAAACCTTTGAT
GTCAAGGCTTCAAGTTTGCTGAAGAAGTATGTATTGAAAATATGATACTTGCCTCCAAGCCTAC
TTGTCGATGGCATTTGTCCCATTAGGTAC
						
					

			
		

Sequences
Splice junction sequence	CTTTGATGTCAAGGCTTCAAGTTTGCTGAAGAAGTATGTATTGAAAATATGATACTTGCCTCCA AGCCTACTTGTCGATGGCATTTGTCCCATTAGGTACtgtaactgctttcttcttaattttccga ggaaggttcttccacactgattcatgtagatgacaatcttctaaagaaccagttttattcaggt agttccat
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: 374 Transcript exons: 16736212-16736326,16736650-16736772,16736965-16737058,16 738119-16738160 TGTAACTGCTTTCTTCTTAATTTTCCGAGGAAGGTTCTTCCACACTGATTCATGTAGATGACAA TCTTCTAAAGAACCAGTTTTATTCAGGTAGTTCCATTCTTCTTTAAGGAATCTCTCAACGGTGC TGAAAATAAATCTGCTGCTATGAAACTTCAGTGAATCCAAATGAAATATGGTGGGCCCTGATTG GTCTTCCTTTGCAGGCATACATATAATGACCAAGCTCCAGTGTGCGTCTGCATGCACAGGAATT ATTATGTATGCCTTTTTAAATATATCTACACCTTTCCACCATCTTCTCAGATTCAAGAAATAAG CATCATTGTCCACCTCCAAGCCTACTTGTCGATGGCATTTGTCCCATTAGGTAC Transcript length: 433 Transcript exons: 16736212-16736326,16736650-16736772,16736965-16737059,16 738061-16738160 TGTAACTGCTTTCTTCTTAATTTTCCGAGGAAGGTTCTTCCACACTGATTCATGTAGATGACAA TCTTCTAAAGAACCAGTTTTATTCAGGTAGTTCCATTCTTCTTTAAGGAATCTCTCAACGGTGC TGAAAATAAATCTGCTGCTATGAAACTTCAGTGAATCCAAATGAAATATGGTGGGCCCTGATTG GTCTTCCTTTGCAGGCATACATATAATGACCAAGCTCCAGTGTGCGTCTGCATGCACAGGAATT ATTATGTATGCCTTTTTAAATATATCTACACCTTTCCACCATCTTCTCAGATTCAAGAAATAAG CATCATTGTCCACCTTTGATGTCAAGGCTTCAAGTTTGCTGAAGAAGTATGTATTGAAAATATG ATACTTGCCTCCAAGCCTACTTGTCGATGGCATTTGTCCCATTAGGTAC
Genomic sequence	TGTAACTGCTTTCTTCTTAATTTTCCGAGGAAGGTTCTTCCACACTGATTCATGTAGATGACAA TCTTCTAAAGAACCAGTTTTATTCAGGTAGTTCCATTCTTCTTTAAGGAATCTGTAAACAACTT CAAGGTGTAAGAAAGCACTAAAAATAATCTAGCTTAAACTGAGTATCAAACAATTTCATACCCA TATAAGCAGGAGGAATAAAAAGGCATGCACCAAATAACAGTATACAGATACCAGAAGCTAAGCT TCTACCAATTGCAGAAGTGCAGTTATTGGGAAGTTGGGGAACTCAATTATGAAAAAAGAAAAAA GAACATGTTGAAAAAATGTTGGCCTTTATCACATGTATTTGTGTACTTAAGAGAAAAAAGGTGG TACACCAAATAACACACAACATACAAATTCTCAGAAGTTTTTTGGACCACTTGCCTCTCAACGG TGCTGAAAATAAATCTGCTGCTATGAAACTTCAGTGAATCCAAATGAAATATGGTGGGCCCTGA TTGGTCTTCCTTTGCAGGCATACATATAATGACCAAGCTCCAGTGTGCGCTGACCAATACAATA CAATATACTGTAAGGAATAGCCGAATAGGTAGCGTTGCATAGATAGGTTAAGATATGCATGTGA TCAGCTCAGGTCCCAACTCAGGAGTTGGGACTTGGGACCTGAGCTCATGAGTTGGTAACAAATA ATTGTTGTATTCCTGATGACAACAAAAAGAAGGCAACAAAATTGCTTACTCTGCATGCACAGGA ATTATTATGTATGCCTTTTTAAATATATCTACACCTTTCCACCATCTTCTCAGATTCAAGAAAT AAGCATCATTGTCCACCTTCAGAGTATGAATACAAAAAAAATTAAAGGAATAACCATACAAAAT AAACATCACATGGATTTTTTTATAAAAAAATCAAAATGGTGAACTAACATCAATTTTTCATTTA TGAAAAAGTAATAAAAAAAATAGGTACTACCTCCGTCCCAGAATAGGTTCACTTTTATACAAGA ATCTGGATATAGGCTATGTCTAGATTCGTGTAGAAAAGTGGAGTTATTTTGGGACGGAGAGAGT ATTAGCTAACAGTAGCATGAAATTAAACATAATTTATGCATGATACATGTAGCCAGCAGTTGCT ACATTAGGACAAAGAAAAAGGTGTTTATGGCTTGGGACTGAGGGCTAAAAATTGGTTAGATGGA GGCGTAGTTACCCTCTAGCTTGTAGGAGATTCAATCCTTTGTGATACGACTGATAAACCAGCTA AGTGGACATTAGTCAAGAGTTTATCTCTTACGTAACTTAGAGAAGCTAAACTAGCTCCCTCATA CAGATGGTCTACCAACTCCAAACCAAATCTAAGAGGCAACAATTGATTGGGAACTAGACAACCT TATGCATAACGACTTATGCCAAACTAGCTACTCTTAGTGAATTATCTGAATCCTAGCCAGTTGT ACCTTATGAATTGACAAGCTAGCTGCAACCAAAATTACAAGTGCTACCACTGCTGCTTTGTCTA CATAACTGCTGTCCACAAGGCATGAACTCCATAACAACAATTACGAACTAAATACCTAAAACAC CAGTAAGATTGAATAGAACATATACATATATGGTTAGTCTTGTACTCGTTTCTCTTGTCCATGT TGAATTATAGCTATTCATCTTTCTAGGTGCAAAATTCAAGATCTAATATGAAAGATGAACTAGA ATACCCCGCAAAAAAAAATAGAAAAGGAACAAGAAAAGATAGCAAATCTATCAATCACATTATA GCATATTATTTTTTTAAGAAATAAAGTAAATGTTAAGAATCTAATATAGGAAAAAACCTTTGAT GTCAAGGCTTCAAGTTTGCTGAAGAAGTATGTATTGAAAATATGATACTTGCCTCCAAGCCTAC TTGTCGATGGCATTTGTCCCATTAGGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_006756* osi_circ_016215 						
					
						PMCS
						0.312304686

Conservation Information
Conserved circRNAs	osi_circ_006756* osi_circ_016215
PMCS	0.312304686

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							16736971-16736269(+)
16736266-16737051(-)
16736746-16738130(-)
						
						Potential amino acid sequence
						
							MHRNYYVCLFKYIYTFPPSSQIQEISIIVHLQAYLSMAFVPLGTVTAFFLIFRGRFFHTDSCR*
(+)
MNQCGRTFLGKLRRKQLQYLMGQMPSTSRLGGGQ*(-)
MPAKEDQSGPTIFHLDSLKFHSSRFIFSTVERFLKEEWNYLNKTGSLEDCHLHESVWKNLPRKI
KKKAVTVPNGTNAIDK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	16736971-16736269(+) 16736266-16737051(-) 16736746-16738130(-)
Potential amino acid sequence	MHRNYYVCLFKYIYTFPPSSQIQEISIIVHLQAYLSMAFVPLGTVTAFFLIFRGRFFHTDSCR* (+) MNQCGRTFLGKLRRKQLQYLMGQMPSTSRLGGGQ(-) MPAKEDQSGPTIFHLDSLKFHSSRFIFSTVERFLKEEWNYLNKTGSLEDCHLHESVWKNLPRKI KKKAVTVPNGTNAIDK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os06g0487900_circ_g.2

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