Plant Circular RNA Database

Detail information of Os04g0636600_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os04g0636600_circ_g.4
					
						ID in PlantcircBase
						osa_circ_025531
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 32373595-32375136  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os04g0636600						
					
						Parent gene annotation
						
							Hypothetical conserved gene. (Os04t0636600-01);Mitochondrial inn
er membrane protein Mitofilin domain containing protein. (Os04t0
636600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0636600_circ_g.1 Os04g0636600_circ_g.2 Os04g0636600_circ_g.3 						
					
						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  
						
							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
						Os04t0636600-02:5

General Information
CircRNA Name	Os04g0636600_circ_g.4
ID in PlantcircBase	osa_circ_025531
Alias	NA
Organism	Oryza sativa
Position	chr4: 32373595-32375136 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer
Parent gene	Os04g0636600
Parent gene annotation	Hypothetical conserved gene. (Os04t0636600-01);Mitochondrial inn er membrane protein Mitofilin domain containing protein. (Os04t0 636600-02)
Parent gene strand	-
Alternative splicing	Os04g0636600_circ_g.1 Os04g0636600_circ_g.2 Os04g0636600_circ_g.3
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	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	Os04t0636600-02:5

			
						 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  
						
							AAAGAGGAGAGCGTACCATGTCTTTAGAATTATCAGGTTCTTGTAGTAAATATGTCTCAGCCAG
AGATTTATGTTCAACTGCACCAGCGCTTGATGGATCattgagatttgcttcagcaatctgttcg
atctgggatgctctctcttttgcaagagctgcagcaagctcagcctttgctaactcgcgaacct
tctcaact

									
								

					

						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: 529
Transcript exons: 32373595-32373714,32373807-32373899,32374464-32374539,32
374769-32374924,32375053-32375136
ATTGAGATTTGCTTCAGCAATCTGTTCGATCTGGGATGCTCTCTCTTTTGCAAGAGCTGCAGCA
AGCTCAGCCTTTGCTAACTCGCGAACCTTCTCAACTTGTTGACTTGTTTCCTCATCCTTCTGCT
GCAGCTCATCCCTTAGCTTTTGTTCAGCATTTTCTTGCAGTTCCTTAATCACAGCAGCTGACTT
CAATTTCTCTTTCTTCAGCTCCTTGCCAGAATTGCTGCTTTTCAGCATACATGAGCTCCCGAGC
CCTGGTGTCCTTCAGCTCCTTTTCATATTTCTCCTTCAACTTCCTTTTCTCTTCTGAATACATG
TAAGCATCTGCATCTGCCTGCTTTCTTTCAGCAGCATGAATAGCCTCTATGATATCAAGTACAA
TTTTCCCATCATCAGAAGTTCCCGTACTAATAACACCATCGTGTTTACTTTCCTTAGCACCCAT
GTCTTTAGAATTATCAGGTTCTTGTAGTAAATATGTCTCAGCCAGAGATTTATGTTCAACTGCA
CCAGCGCTTGATGGATC
						
					

						Genomic sequence
						
							ATTGAGATTTGCTTCAGCAATCTGTTCGATCTGGGATGCTCTCTCTTTTGCAAGAGCTGCAGCA
AGCTCAGCCTTTGCTAACTCGCGAACCTTCTCAACTTGTTGACTTGTTTCCTCATCCTGTTACA
TTAGCCATACCAATGTCAACTATGTAATGATTAGCATAAAGAGGGCAGAGAGTTTATAGCAGAT
AGAAAACAAATCTGACAGACCTTCTGCTGCAGCTCATCCCTTAGCTTTTGTTCAGCATTTTCTT
GCAGTTCCTTAATCACAGCAGCTGACTTCAATTTCTCTTTCTTCAGCTCCTAAAACAAAACAAA
AGGAGAAAAGAAGATTAAAACCACCACAAAAAAATAATCAATCTGAAATTAAAATATAAACAAG
AGACACGATCTGCATTCTATAGGAAAGAGAGATTATATACAGGTCTAGTGAAGTGAAGCGAAGG
CATATAGAGCAAAAAAATTTTGCTTTTTGTGTAAATTTAAATTACATATCCACAGAAAAAATGA
AAAGGTTTAACTCCTCCTTCCCTCTCCAAATGTAGGTTGTCATGGTATTCGTGCAGTCAAACAC
TTCGAACTTTAAAACTCCATATATGTATATTAGCCACATGGCATCTGAATATTTATGTAATTTT
TTTCATGATATTATTATTAAAAAACCTATGGTCAAAGTCTTAAAGATAGAGGATGAAAAGTAAA
AAGGACCTAAATCTTGAGATATAGGTATGCGTCAAGCTGTGTATATTTATATAGCTGAGCAGGT
CTTTTTTCGGTGAGAAACATTGTTCGCATCCAGCAGAATACAATGTTTATGGAAACATGATCAA
AGAGACTAGCGATAATAAAATATAAAATGTCACAGACCTTGCCAGAATTGCTGCTTTTCAGCAT
ACATGAGCTCCCGAGCCCTGGTGTCCTTCAGCTCCTTTTCATATTTCTCCTGAGAAAACATAAG
CAGAGTACTGACCATTATAAAATGTAATAGTATAAAATCAAAAGAATCAATTATAAACGTCATT
TGTCAAATTTGGAACTGCTACAAATCCACAAAACATCAGTTCAACAGAAGAAAAGAGGGAACAT
AATACTGTAAATCACAAAGGCATGCTAGTGTTGAAACTCAATGCAGTAAATAACGAAGCAGTCA
TAATATGAAATCGAAAGCAAACCTTCAACTTCCTTTTCTCTTCTGAATACATGTAAGCATCTGC
ATCTGCCTGCTTTCTTTCAGCAGCATGAATAGCCTCTATGATATCAAGTACAATTTTCCCATCA
TCAGAAGTTCCCGTACTAATAACACCATCGTGTTTACTTTCCTTAGCACCCTGATAACAGAAAA
CATCAGATATATTAACATTGAAAAGGTACCATTAAATTATTTCTATCAACCTTGTAATTAGAAA
GTATTTCATCGATATTAGTACCACAACAATGACTAAAGAGGAGAGCGTACCATGTCTTTAGAAT
TATCAGGTTCTTGTAGTAAATATGTCTCAGCCAGAGATTTATGTTCAACTGCACCAGCGCTTGA
TGGATC
						
					

			
		

Sequences
Splice junction sequence	AAAGAGGAGAGCGTACCATGTCTTTAGAATTATCAGGTTCTTGTAGTAAATATGTCTCAGCCAG AGATTTATGTTCAACTGCACCAGCGCTTGATGGATCattgagatttgcttcagcaatctgttcg atctgggatgctctctcttttgcaagagctgcagcaagctcagcctttgctaactcgcgaacct tctcaact
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: 529 Transcript exons: 32373595-32373714,32373807-32373899,32374464-32374539,32 374769-32374924,32375053-32375136 ATTGAGATTTGCTTCAGCAATCTGTTCGATCTGGGATGCTCTCTCTTTTGCAAGAGCTGCAGCA AGCTCAGCCTTTGCTAACTCGCGAACCTTCTCAACTTGTTGACTTGTTTCCTCATCCTTCTGCT GCAGCTCATCCCTTAGCTTTTGTTCAGCATTTTCTTGCAGTTCCTTAATCACAGCAGCTGACTT CAATTTCTCTTTCTTCAGCTCCTTGCCAGAATTGCTGCTTTTCAGCATACATGAGCTCCCGAGC CCTGGTGTCCTTCAGCTCCTTTTCATATTTCTCCTTCAACTTCCTTTTCTCTTCTGAATACATG TAAGCATCTGCATCTGCCTGCTTTCTTTCAGCAGCATGAATAGCCTCTATGATATCAAGTACAA TTTTCCCATCATCAGAAGTTCCCGTACTAATAACACCATCGTGTTTACTTTCCTTAGCACCCAT GTCTTTAGAATTATCAGGTTCTTGTAGTAAATATGTCTCAGCCAGAGATTTATGTTCAACTGCA CCAGCGCTTGATGGATC
Genomic sequence	ATTGAGATTTGCTTCAGCAATCTGTTCGATCTGGGATGCTCTCTCTTTTGCAAGAGCTGCAGCA AGCTCAGCCTTTGCTAACTCGCGAACCTTCTCAACTTGTTGACTTGTTTCCTCATCCTGTTACA TTAGCCATACCAATGTCAACTATGTAATGATTAGCATAAAGAGGGCAGAGAGTTTATAGCAGAT AGAAAACAAATCTGACAGACCTTCTGCTGCAGCTCATCCCTTAGCTTTTGTTCAGCATTTTCTT GCAGTTCCTTAATCACAGCAGCTGACTTCAATTTCTCTTTCTTCAGCTCCTAAAACAAAACAAA AGGAGAAAAGAAGATTAAAACCACCACAAAAAAATAATCAATCTGAAATTAAAATATAAACAAG AGACACGATCTGCATTCTATAGGAAAGAGAGATTATATACAGGTCTAGTGAAGTGAAGCGAAGG CATATAGAGCAAAAAAATTTTGCTTTTTGTGTAAATTTAAATTACATATCCACAGAAAAAATGA AAAGGTTTAACTCCTCCTTCCCTCTCCAAATGTAGGTTGTCATGGTATTCGTGCAGTCAAACAC TTCGAACTTTAAAACTCCATATATGTATATTAGCCACATGGCATCTGAATATTTATGTAATTTT TTTCATGATATTATTATTAAAAAACCTATGGTCAAAGTCTTAAAGATAGAGGATGAAAAGTAAA AAGGACCTAAATCTTGAGATATAGGTATGCGTCAAGCTGTGTATATTTATATAGCTGAGCAGGT CTTTTTTCGGTGAGAAACATTGTTCGCATCCAGCAGAATACAATGTTTATGGAAACATGATCAA AGAGACTAGCGATAATAAAATATAAAATGTCACAGACCTTGCCAGAATTGCTGCTTTTCAGCAT ACATGAGCTCCCGAGCCCTGGTGTCCTTCAGCTCCTTTTCATATTTCTCCTGAGAAAACATAAG CAGAGTACTGACCATTATAAAATGTAATAGTATAAAATCAAAAGAATCAATTATAAACGTCATT TGTCAAATTTGGAACTGCTACAAATCCACAAAACATCAGTTCAACAGAAGAAAAGAGGGAACAT AATACTGTAAATCACAAAGGCATGCTAGTGTTGAAACTCAATGCAGTAAATAACGAAGCAGTCA TAATATGAAATCGAAAGCAAACCTTCAACTTCCTTTTCTCTTCTGAATACATGTAAGCATCTGC ATCTGCCTGCTTTCTTTCAGCAGCATGAATAGCCTCTATGATATCAAGTACAATTTTCCCATCA TCAGAAGTTCCCGTACTAATAACACCATCGTGTTTACTTTCCTTAGCACCCTGATAACAGAAAA CATCAGATATATTAACATTGAAAAGGTACCATTAAATTATTTCTATCAACCTTGTAATTAGAAA GTATTTCATCGATATTAGTACCACAACAATGACTAAAGAGGAGAGCGTACCATGTCTTTAGAAT TATCAGGTTCTTGTAGTAAATATGTCTCAGCCAGAGATTTATGTTCAACTGCACCAGCGCTTGA TGGATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.232374135

Conservation Information
Conserved circRNAs	NA
PMCS	0.232374135

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32374849-32373697(+)
32374492-32373861(-)
32373598-32374848(-)
						
						Potential amino acid sequence
						
							MISSTIFPSSEVPVLITPSCLLSLAPMSLELSGSCSKYVSARDLCSTAPALDGSLRFASAICSI
WDALSFARAAASSAFANSRTFSTC*(+)
MLKSSNSGKELKKEKLKSAAVIKELQENAEQKLRDELQQKDEETSQQVEKVRELAKAELAAALA
KERASQIEQIAEANLNDPSSAGAVEHKSLAETYLLQEPDNSKDMGAKESKHDGVISTGTSDDGK
IVLDIIEAIHAAERKQADADAYMYSEEKRKLKEKYEKELKDTRARELMYAEKQQFWQGAEEREI
EVSCCD*(-)
MIHQALVQLNINLWLRHIYYKNLIILKTWVLRKVNTMVLLVRELLMMGKLYLIS*(-)
						
						Sponge-miRNAs
						
							osa-miR156l-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32374849-32373697(+) 32374492-32373861(-) 32373598-32374848(-)
Potential amino acid sequence	MISSTIFPSSEVPVLITPSCLLSLAPMSLELSGSCSKYVSARDLCSTAPALDGSLRFASAICSI WDALSFARAAASSAFANSRTFSTC(+) MLKSSNSGKELKKEKLKSAAVIKELQENAEQKLRDELQQKDEETSQQVEKVRELAKAELAAALA KERASQIEQIAEANLNDPSSAGAVEHKSLAETYLLQEPDNSKDMGAKESKHDGVISTGTSDDGK IVLDIIEAIHAAERKQADADAYMYSEEKRKLKEKYEKELKDTRARELMYAEKQQFWQGAEEREI EVSCCD(-) MIHQALVQLNINLWLRHIYYKNLIILKTWVLRKVNTMVLLVRELLMMGKLYLIS*(-)
Sponge-miRNAs	osa-miR156l-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os04g0636600_circ_g.4

Address

Any questions?

Supported by