Plant Circular RNA Database

Detail information of Os03g0334700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os03g0334700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_019668
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 12377872-12379719  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os03g0334700						
					
						Parent gene annotation
						
							Similar to Potential phospholipid-transporting ATPase VB (EC 3.6
.3.1). (Os03t0334700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0334700_circ_g.1 						
					
						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  
						
							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
						Os03t0334700-01:4

General Information
CircRNA Name	Os03g0334700_circ_g.2
ID in PlantcircBase	osa_circ_019668
Alias	NA
Organism	Oryza sativa
Position	chr3: 12377872-12379719 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os03g0334700
Parent gene annotation	Similar to Potential phospholipid-transporting ATPase VB (EC 3.6 .3.1). (Os03t0334700-01)
Parent gene strand	+
Alternative splicing	Os03g0334700_circ_g.1
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	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	Os03t0334700-01:4

			
						 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  
						
							GATATCAGCTGACAACAATGGTTCGGCGCAGTTGCTCTGTGATCCCAGTTTGCGGGTTATGTTG
ATTCAATTGTTGAGCTGATTTTTGCCCATTTTTTTGttgtttgatctggcgacttcctgtaaag
ttgttatctgctgccgtgttgctccactacaaaaggctggaattgttgatttgattaaaagcag
aacaagtg

									
								

					

						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: 1093
Transcript exons: 12377872-12377995,12378581-12378800,12378883-12379341,12
379430-12379719
TTGTTTGATCTGGCGACTTCCTGTAAAGTTGTTATCTGCTGCCGTGTTGCTCCACTACAAAAGG
CTGGAATTGTTGATTTGATTAAAAGCAGAACAAGTGACATGACCCTGGCAATTGGTGATGGGGC
AAATGATGTTTCAATGATACAGATGGCAGATGTTGGTGTTGGAATATGTGGTCAAGAAGGTCGT
CAAGCAGTGATGGCATCAGATTTTGCCATGGGACAGTTCCGCTTTCTGAAGAGATTACTTCTTG
TACATGGACACTGGAATTATCAGCGTATTGCATACATGATCCTCTACAATTTTTACCGAAATGC
TGTTTTTGTGCTAATGTTGTTCTGGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTA
ACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTTGGCA
TTCTGGACAAGGACTTGAGTCATAATACTCTACTTCATTATCCGAGACTATATGAAACAGGGCT
TCAGAATGAGGGCTACAACTTGACGCTCTTCTGGATCACAATGCTAGATACCTTGTGGCAAAGC
CTTGTCCTTTTCTATGTTCCCTTCTTCACATACAATATCAGTACAATGGACATATGGAGTATGG
GAAGCTTGTGGACGATTGCTGTGGTTATACTTGTCAATATTCATCTGGCCATGGATATCCAACG
TTGGGTGCTTATAACCCATCTTGCTGTATGGGGCTCTATAGCTGCAACATTTTTGTGCATGGTG
TTAATAGATTCTATTCCAATATTCCCTAACTATGGGACAATATACAATATGGCTGCTTCAAGAA
CTTATTGGCTTAGTGTTTGCCTTATAATAGTCCTAGGCTTGCTTCCTCGGTTTCTTTGCAAAGT
AATCTATCAGACCTTTTGGCCATCTGATATTCAAATAGCAAGAGAAGCTGAGTTATTAAAAAAG
CTACCCCGGCAGTTGGGTTCAAGGCCTGCAAGTGATATCAGCTGACAACAATGGTTCGGCGCAG
TTGCTCTGTGATCCCAGTTTGCGGGTTATGTTGATTCAATTGTTGAGCTGATTTTTGCCCATTT
TTTTG
						
					

						Genomic sequence
						
							TTGTTTGATCTGGCGACTTCCTGTAAAGTTGTTATCTGCTGCCGTGTTGCTCCACTACAAAAGG
CTGGAATTGTTGATTTGATTAAAAGCAGAACAAGTGACATGACCCTGGCAATTGGTGATGGTGA
GATTATTTTCGTCTGATTTTAGTTTTGTGATGCTGGTATTTGACATCTCATATTTTTGTTGACA
TACTCATTTGTCATTGTTGTCCTGTTTGTAATTGCACGTTACTTTGAACTAGATGTGGAACTTT
GCAGGTCATAGGTTCCTTCAGTTTCTTGCTAAGTTGAACCGCATTACCAATTAATGTTAAAACA
TTTTAAATTGCATCATCAGATGCCTGACACTTGAATTATCATTGATATATGATTGGACCTACCT
TTTGTGCCTAAACTTTTTTATGTATTGGATGCTTTGTGATATTATATCCTGGCCATCTGTTGAT
GTGTTGCATTTTCATAGGAGTCCAATTCAGCAAAAACAATAGTCTTATCTGTTGAACCTGACGA
TCAGCAAGGGCAAATGCTTTCAGTGGCACAGGGGATCAAATTATATCTTTCTCTAGAAATCAAT
GTTGCCATCTTATCTTTCGTCGCCTTTTTGTGGCCAGCATTTTTTCCCTACTATTTGACCTTAA
TTGATTACTCACCATGTTCAACAAAGAATTGACACCCTTTTGTTTTGTGAACATGTTTCACTTT
TGCAGGGGCAAATGATGTTTCAATGATACAGATGGCAGATGTTGGTGTTGGAATATGTGGTCAA
GAAGGTCGTCAAGCAGTGATGGCATCAGATTTTGCCATGGGACAGTTCCGCTTTCTGAAGAGAT
TACTTCTTGTACATGGACACTGGAATTATCAGCGTATTGCATACATGATCCTCTACAATTTTTA
CCGAAATGCTGTTTTTGTGCTAATGTTGTTCTGGTACACATTCTACCCCCTGCTCATTCTTGTA
TTTGTAATTTCAATTGAAGCTAACAAAAATATTACTATGTGATTTTTTCAGGTATATCTTGCAT
ACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATA
CGTCAATTCCCACAGTGGTAGTTGGCATTCTGGACAAGGACTTGAGTCATAATACTCTACTTCA
TTATCCGAGACTATATGAAACAGGGCTTCAGAATGAGGGCTACAACTTGACGCTCTTCTGGATC
ACAATGCTAGATACCTTGTGGCAAAGCCTTGTCCTTTTCTATGTTCCCTTCTTCACATACAATA
TCAGTACAATGGACATATGGAGTATGGGAAGCTTGTGGACGATTGCTGTGGTTATACTTGTCAA
TATTCATCTGGCCATGGATATCCAACGTTGGGTGCTTATAACCCATCTTGCTGTATGGGGCTCT
ATAGCTGCAACATTTTTGTGCATGGTGTTAATAGATTCTATTCCAATATTCCCTAACTATGGGT
AAGTTTTCCCAGTGCCTCCCTCAAACCATCATATATATATATTTCTAAATGACAACATTTGAAG
TCTATCATCTTATTACTGGCAGGACAATATACAATATGGCTGCTTCAAGAACTTATTGGCTTAG
TGTTTGCCTTATAATAGTCCTAGGCTTGCTTCCTCGGTTTCTTTGCAAAGTAATCTATCAGACC
TTTTGGCCATCTGATATTCAAATAGCAAGAGAAGCTGAGTTATTAAAAAAGCTACCCCGGCAGT
TGGGTTCAAGGCCTGCAAGTGATATCAGCTGACAACAATGGTTCGGCGCAGTTGCTCTGTGATC
CCAGTTTGCGGGTTATGTTGATTCAATTGTTGAGCTGATTTTTGCCCATTTTTTTG
						
					

			
		

Sequences
Splice junction sequence	GATATCAGCTGACAACAATGGTTCGGCGCAGTTGCTCTGTGATCCCAGTTTGCGGGTTATGTTG ATTCAATTGTTGAGCTGATTTTTGCCCATTTTTTTGttgtttgatctggcgacttcctgtaaag ttgttatctgctgccgtgttgctccactacaaaaggctggaattgttgatttgattaaaagcag aacaagtg
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: 1093 Transcript exons: 12377872-12377995,12378581-12378800,12378883-12379341,12 379430-12379719 TTGTTTGATCTGGCGACTTCCTGTAAAGTTGTTATCTGCTGCCGTGTTGCTCCACTACAAAAGG CTGGAATTGTTGATTTGATTAAAAGCAGAACAAGTGACATGACCCTGGCAATTGGTGATGGGGC AAATGATGTTTCAATGATACAGATGGCAGATGTTGGTGTTGGAATATGTGGTCAAGAAGGTCGT CAAGCAGTGATGGCATCAGATTTTGCCATGGGACAGTTCCGCTTTCTGAAGAGATTACTTCTTG TACATGGACACTGGAATTATCAGCGTATTGCATACATGATCCTCTACAATTTTTACCGAAATGC TGTTTTTGTGCTAATGTTGTTCTGGTATATCTTGCATACAGCATATTCTGCAACTCTTGCATTA ACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATACGTCAATTCCCACAGTGGTAGTTGGCA TTCTGGACAAGGACTTGAGTCATAATACTCTACTTCATTATCCGAGACTATATGAAACAGGGCT TCAGAATGAGGGCTACAACTTGACGCTCTTCTGGATCACAATGCTAGATACCTTGTGGCAAAGC CTTGTCCTTTTCTATGTTCCCTTCTTCACATACAATATCAGTACAATGGACATATGGAGTATGG GAAGCTTGTGGACGATTGCTGTGGTTATACTTGTCAATATTCATCTGGCCATGGATATCCAACG TTGGGTGCTTATAACCCATCTTGCTGTATGGGGCTCTATAGCTGCAACATTTTTGTGCATGGTG TTAATAGATTCTATTCCAATATTCCCTAACTATGGGACAATATACAATATGGCTGCTTCAAGAA CTTATTGGCTTAGTGTTTGCCTTATAATAGTCCTAGGCTTGCTTCCTCGGTTTCTTTGCAAAGT AATCTATCAGACCTTTTGGCCATCTGATATTCAAATAGCAAGAGAAGCTGAGTTATTAAAAAAG CTACCCCGGCAGTTGGGTTCAAGGCCTGCAAGTGATATCAGCTGACAACAATGGTTCGGCGCAG TTGCTCTGTGATCCCAGTTTGCGGGTTATGTTGATTCAATTGTTGAGCTGATTTTTGCCCATTT TTTTG
Genomic sequence	TTGTTTGATCTGGCGACTTCCTGTAAAGTTGTTATCTGCTGCCGTGTTGCTCCACTACAAAAGG CTGGAATTGTTGATTTGATTAAAAGCAGAACAAGTGACATGACCCTGGCAATTGGTGATGGTGA GATTATTTTCGTCTGATTTTAGTTTTGTGATGCTGGTATTTGACATCTCATATTTTTGTTGACA TACTCATTTGTCATTGTTGTCCTGTTTGTAATTGCACGTTACTTTGAACTAGATGTGGAACTTT GCAGGTCATAGGTTCCTTCAGTTTCTTGCTAAGTTGAACCGCATTACCAATTAATGTTAAAACA TTTTAAATTGCATCATCAGATGCCTGACACTTGAATTATCATTGATATATGATTGGACCTACCT TTTGTGCCTAAACTTTTTTATGTATTGGATGCTTTGTGATATTATATCCTGGCCATCTGTTGAT GTGTTGCATTTTCATAGGAGTCCAATTCAGCAAAAACAATAGTCTTATCTGTTGAACCTGACGA TCAGCAAGGGCAAATGCTTTCAGTGGCACAGGGGATCAAATTATATCTTTCTCTAGAAATCAAT GTTGCCATCTTATCTTTCGTCGCCTTTTTGTGGCCAGCATTTTTTCCCTACTATTTGACCTTAA TTGATTACTCACCATGTTCAACAAAGAATTGACACCCTTTTGTTTTGTGAACATGTTTCACTTT TGCAGGGGCAAATGATGTTTCAATGATACAGATGGCAGATGTTGGTGTTGGAATATGTGGTCAA GAAGGTCGTCAAGCAGTGATGGCATCAGATTTTGCCATGGGACAGTTCCGCTTTCTGAAGAGAT TACTTCTTGTACATGGACACTGGAATTATCAGCGTATTGCATACATGATCCTCTACAATTTTTA CCGAAATGCTGTTTTTGTGCTAATGTTGTTCTGGTACACATTCTACCCCCTGCTCATTCTTGTA TTTGTAATTTCAATTGAAGCTAACAAAAATATTACTATGTGATTTTTTCAGGTATATCTTGCAT ACAGCATATTCTGCAACTCTTGCATTAACAGATTGGAGTAGTGTTTTCTATTCCCTTATCTATA CGTCAATTCCCACAGTGGTAGTTGGCATTCTGGACAAGGACTTGAGTCATAATACTCTACTTCA TTATCCGAGACTATATGAAACAGGGCTTCAGAATGAGGGCTACAACTTGACGCTCTTCTGGATC ACAATGCTAGATACCTTGTGGCAAAGCCTTGTCCTTTTCTATGTTCCCTTCTTCACATACAATA TCAGTACAATGGACATATGGAGTATGGGAAGCTTGTGGACGATTGCTGTGGTTATACTTGTCAA TATTCATCTGGCCATGGATATCCAACGTTGGGTGCTTATAACCCATCTTGCTGTATGGGGCTCT ATAGCTGCAACATTTTTGTGCATGGTGTTAATAGATTCTATTCCAATATTCCCTAACTATGGGT AAGTTTTCCCAGTGCCTCCCTCAAACCATCATATATATATATTTCTAAATGACAACATTTGAAG TCTATCATCTTATTACTGGCAGGACAATATACAATATGGCTGCTTCAAGAACTTATTGGCTTAG TGTTTGCCTTATAATAGTCCTAGGCTTGCTTCCTCGGTTTCTTTGCAAAGTAATCTATCAGACC TTTTGGCCATCTGATATTCAAATAGCAAGAGAAGCTGAGTTATTAAAAAAGCTACCCCGGCAGT TGGGTTCAAGGCCTGCAAGTGATATCAGCTGACAACAATGGTTCGGCGCAGTTGCTCTGTGATC CCAGTTTGCGGGTTATGTTGATTCAATTGTTGAGCTGATTTTTGCCCATTTTTTTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.420456651

Conservation Information
Conserved circRNAs	NA
PMCS	0.420456651

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							12377977-12379688(-)
						
						Potential amino acid sequence
						
							MSLVLLLIKSTIPAFCSGATRQQITTLQEVARSNNKKMGKNQLNN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	12377977-12379688(-)
Potential amino acid sequence	MSLVLLLIKSTIPAFCSGATRQQITTLQEVARSNNKKMGKNQLNN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os03g0334700_circ_g.2

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