Plant Circular RNA Database

Detail information of Os05g0418000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0418000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_027915
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 20479966-20481794  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							Os05g0418000						
					
						Parent gene annotation
						
							GDP dissociation inhibitor protein OsGDI1. (Os05t0418000-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0418000_circ_g.3 Os05g0418000_circ_g.4 Os05g0418000_circ_g.5 						
					
						Support reads
						30
					
						Tissues
						seed
					
						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
						Os05t0418000-01:4

General Information
CircRNA Name	Os05g0418000_circ_g.2
ID in PlantcircBase	osa_circ_027915
Alias	NA
Organism	Oryza sativa
Position	chr5: 20479966-20481794 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	Os05g0418000
Parent gene annotation	GDP dissociation inhibitor protein OsGDI1. (Os05t0418000-01)
Parent gene strand	+
Alternative splicing	Os05g0418000_circ_g.3 Os05g0418000_circ_g.4 Os05g0418000_circ_g.5
Support reads	30
Tissues	seed
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	Os05t0418000-01:4

			
						 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  
						
							TTATCTTCTGTTCTTGTAGTTATATGCAGAGTCCCTTGCACGCTTTCAAGGAGGTTCACCTTAT
ATTTATCCACTGTACGGTCTGGGTGAGCTGCCACAGtttatgatggcaaatggcacattggtaa
ggaccctgattcacactgatgtgacaaagtatttgtcattcaaagctgttgatgggagctacgt
cttcagca

									
								

					

						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
						
							TTTATGATGGCAAATGGCACATTGGTAAGGACCCTGATTCACACTGATGTGACAAAGTATTTGT
CATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGGTAACATCTTCAGCTTATGT
TAGTCTTTTAATAGCATCATATTTCCGATAGTGTTTTCTCTAAGTGGTTGTTAGATCTATATTC
TGGTGATCTGTTCTTATTCCTATTAACATACCCTTTTCTATTTTCATTGTCAATCAGATTCACA
AGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGGGCCTTTTTGAGAAACGCAG
AGCAAGAAACTTCTTCATTTACGTCCAAGATTATGATGAAGCTGATCCAAAAACACATCAAGGG
TTGGATCTTACTACAATGACAACTAGAGAACTGATAGCGTGAGTACATCAGTGCTTGCTTCTCA
TTAGTGCACACCTTCTGTTTCTAAAGGAAACAACAAATTTGGAACATGCCCATTATCTTTATAT
GGGAGGTATTGTTGTAATATTGTAGACTTATACATGAACTAACGCGTACATGAAATGTCAAACA
TCATGTGGGCATCAATCCATACGTGAAACCAAGTTCATTTGAAGGAAAAAAAATGCACTCTTGA
ATATATCAGATGTCTGGCTAATAGTCAATAGCAAAGAGAACATCCATAGCTCCATCTGTCCATT
GAGTAGAACTGTAGAAGGGTCTGATAGATGGAATTTTGCATGGAATACAAACGTGGCATGTGGC
AGTCTTCATGTACAAAGCAAGAGCCCAAAACTTAGTTGCCACTAATGTATTGCTAAATTTAAAA
TAACTGTTGATACGGCTGAAAGATTTCTTTGGATGAAACTACCTTGGTAATAAAAACCAAAGTA
GTTACATTGTTGAACCATGCAACAGATTTGTGTTTATCTGCTGTGTGCTGTGGTACTGCATTAC
AAGCCTCCTTGGTGCTGCTTATGCAATGTAGAAACCTGAATATCTCTTTCAGGGAAAGTGAAAA
ATGAAAGCATAGGTGTTGGGGTGGGTTGGAGGTATCTAGGTTATGGCACCAATATAGTTATTAC
TGGAAAACTTCAATTTGCCGTATTTTTAGTTTGTTCCATATTTGCGTCTTGCCTAATGCAGGCC
CACCTAAATATAGATTACCTTCTTTTGTATCTTTTGTAACTTATAAGAAGATTACTTCCTGATG
GATATTCTTGTTGTCTTCTAGTGATTGTGTTCCAATAAAAAGGCATTATTTTATGAAAATAGCA
GATAAATTTTCTTCCTCACAATATATAATTGATTTGCCTTCAACCTTAGACATGTTGCAAAAGG
TTATACCTGTGCTTATTGTTACATTTTATTTGAACATAAGTGACTCTGTTTCCATGTGTCTTCT
TTTCCAGAAAATATGGTTTAAGTGACGATACTGTGGATTTCATCGGCCATGCACTTGCTCTTCA
TAGAGATGATCGTTACCTAAATGAACCAGCAATTGATACTGTAAAAAGGATGAAAGTAAGTCTT
GTTTGTAGTTTGCTGTTATCAGTATCCTCTGCTCATATCCTACCATTCCATTTTCATCTCTTAA
ACACCTTCAGGCTGCATTAGTTAGCCATAATTCATTTCCCGGTTACTACTTACTAGTGTTCCTC
TTTTAGCTGTGTCACTGCTGTTTTGTGAATATTCTTTCTTTATGGAGTTCAGTTACATTTATTG
GTTATCTTCTGTTCTTGTAGTTATATGCAGAGTCCCTTGCACGCTTTCAAGGAGGTTCACCTTA
TATTTATCCACTGTACGGTCTGGGTGAGCTGCCACAG
						
					

			
		

Sequences
Splice junction sequence	TTATCTTCTGTTCTTGTAGTTATATGCAGAGTCCCTTGCACGCTTTCAAGGAGGTTCACCTTAT ATTTATCCACTGTACGGTCTGGGTGAGCTGCCACAGtttatgatggcaaatggcacattggtaa ggaccctgattcacactgatgtgacaaagtatttgtcattcaaagctgttgatgggagctacgt cttcagca
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	TTTATGATGGCAAATGGCACATTGGTAAGGACCCTGATTCACACTGATGTGACAAAGTATTTGT CATTCAAAGCTGTTGATGGGAGCTACGTCTTCAGCAAAGGGAAGGTAACATCTTCAGCTTATGT TAGTCTTTTAATAGCATCATATTTCCGATAGTGTTTTCTCTAAGTGGTTGTTAGATCTATATTC TGGTGATCTGTTCTTATTCCTATTAACATACCCTTTTCTATTTTCATTGTCAATCAGATTCACA AGGTACCTGCTACCGATATGGAGGCTCTGAAGTCCCCTTTGATGGGCCTTTTTGAGAAACGCAG AGCAAGAAACTTCTTCATTTACGTCCAAGATTATGATGAAGCTGATCCAAAAACACATCAAGGG TTGGATCTTACTACAATGACAACTAGAGAACTGATAGCGTGAGTACATCAGTGCTTGCTTCTCA TTAGTGCACACCTTCTGTTTCTAAAGGAAACAACAAATTTGGAACATGCCCATTATCTTTATAT GGGAGGTATTGTTGTAATATTGTAGACTTATACATGAACTAACGCGTACATGAAATGTCAAACA TCATGTGGGCATCAATCCATACGTGAAACCAAGTTCATTTGAAGGAAAAAAAATGCACTCTTGA ATATATCAGATGTCTGGCTAATAGTCAATAGCAAAGAGAACATCCATAGCTCCATCTGTCCATT GAGTAGAACTGTAGAAGGGTCTGATAGATGGAATTTTGCATGGAATACAAACGTGGCATGTGGC AGTCTTCATGTACAAAGCAAGAGCCCAAAACTTAGTTGCCACTAATGTATTGCTAAATTTAAAA TAACTGTTGATACGGCTGAAAGATTTCTTTGGATGAAACTACCTTGGTAATAAAAACCAAAGTA GTTACATTGTTGAACCATGCAACAGATTTGTGTTTATCTGCTGTGTGCTGTGGTACTGCATTAC AAGCCTCCTTGGTGCTGCTTATGCAATGTAGAAACCTGAATATCTCTTTCAGGGAAAGTGAAAA ATGAAAGCATAGGTGTTGGGGTGGGTTGGAGGTATCTAGGTTATGGCACCAATATAGTTATTAC TGGAAAACTTCAATTTGCCGTATTTTTAGTTTGTTCCATATTTGCGTCTTGCCTAATGCAGGCC CACCTAAATATAGATTACCTTCTTTTGTATCTTTTGTAACTTATAAGAAGATTACTTCCTGATG GATATTCTTGTTGTCTTCTAGTGATTGTGTTCCAATAAAAAGGCATTATTTTATGAAAATAGCA GATAAATTTTCTTCCTCACAATATATAATTGATTTGCCTTCAACCTTAGACATGTTGCAAAAGG TTATACCTGTGCTTATTGTTACATTTTATTTGAACATAAGTGACTCTGTTTCCATGTGTCTTCT TTTCCAGAAAATATGGTTTAAGTGACGATACTGTGGATTTCATCGGCCATGCACTTGCTCTTCA TAGAGATGATCGTTACCTAAATGAACCAGCAATTGATACTGTAAAAAGGATGAAAGTAAGTCTT GTTTGTAGTTTGCTGTTATCAGTATCCTCTGCTCATATCCTACCATTCCATTTTCATCTCTTAA ACACCTTCAGGCTGCATTAGTTAGCCATAATTCATTTCCCGGTTACTACTTACTAGTGTTCCTC TTTTAGCTGTGTCACTGCTGTTTTGTGAATATTCTTTCTTTATGGAGTTCAGTTACATTTATTG GTTATCTTCTGTTCTTGTAGTTATATGCAGAGTCCCTTGCACGCTTTCAAGGAGGTTCACCTTA TATTTATCCACTGTACGGTCTGGGTGAGCTGCCACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.138190031

Conservation Information
Conserved circRNAs	NA
PMCS	0.138190031

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							20479970-20481791(+)
20481719-20479969(+)
						
						Potential amino acid sequence
						
							MMANGTLVRTLIHTDVTKYLSFKAVDGSYVFSKGKIHKVPATDMEALKSPLMGLFEKRRARNFF
IYVQDYDEADPKTHQGLDLTTMTTRELIAKYGLSDDTVDFIGHALALHRDDRYLNEPAIDTVKR
MKLYAESLARFQGGSPYIYPLYGLGELPQFMMANGTLVRTLIHTDVTKYLSFKAVDGSYVFSKG
KIHKVPATDMEALKSPLMGLFEKRRARNFFIYVQDYDEADPKTHQGLDLTTMTTRELIAKYGLS
DDTVDFIGHALALHRDDRYLNEPAIDTVKRMKLYAESLARFQGGSPYIYPLYGLGELPQFMMAN
GTLVRTLIHTDVTKYLSFKAVDGSYVFSKGKIHKVPATDMEALKSPLMGLFEKRRARNFFIYVQ
DYDEADPKTHQGLDLTTMTTRELIAKYGLSDDTVDFIGHALALHRDDRYLNEPAIDTVKRMKLY
AESLARFQGGSPYIYPLYGLGELPQFMMANGTLVRTLIHTDVTKYLSFKAVDGSYVFSKGKIHK
VPATDMEALKSPLMGLFEKRRARNFFIYVQDYDEADPKTHQGLDLTTMTTRELIAKYGLSDDTV
DFIGHALALHRDDRYLNEPAIDTVKRMKLYAESLARFQGGSPYIYPLYGLGELPQ(+)
MQSPLHAFKEVHLIFIHCTVWVSCHSL*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	20479970-20481791(+) 20481719-20479969(+)
Potential amino acid sequence	MMANGTLVRTLIHTDVTKYLSFKAVDGSYVFSKGKIHKVPATDMEALKSPLMGLFEKRRARNFF IYVQDYDEADPKTHQGLDLTTMTTRELIAKYGLSDDTVDFIGHALALHRDDRYLNEPAIDTVKR MKLYAESLARFQGGSPYIYPLYGLGELPQFMMANGTLVRTLIHTDVTKYLSFKAVDGSYVFSKG KIHKVPATDMEALKSPLMGLFEKRRARNFFIYVQDYDEADPKTHQGLDLTTMTTRELIAKYGLS DDTVDFIGHALALHRDDRYLNEPAIDTVKRMKLYAESLARFQGGSPYIYPLYGLGELPQFMMAN GTLVRTLIHTDVTKYLSFKAVDGSYVFSKGKIHKVPATDMEALKSPLMGLFEKRRARNFFIYVQ DYDEADPKTHQGLDLTTMTTRELIAKYGLSDDTVDFIGHALALHRDDRYLNEPAIDTVKRMKLY AESLARFQGGSPYIYPLYGLGELPQFMMANGTLVRTLIHTDVTKYLSFKAVDGSYVFSKGKIHK VPATDMEALKSPLMGLFEKRRARNFFIYVQDYDEADPKTHQGLDLTTMTTRELIAKYGLSDDTV DFIGHALALHRDDRYLNEPAIDTVKRMKLYAESLARFQGGSPYIYPLYGLGELPQ(+) MQSPLHAFKEVHLIFIHCTVWVSCHSL*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0418000_circ_g.2

Address

Any questions?

Supported by