Plant Circular RNA Database

Detail information of Os04g0636600_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os04g0636600_circ_g.1
					
						ID in PlantcircBase
						osa_circ_025528
					
						Alias
						Os_ciR9599
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 32371471-32375136  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						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.2 Os04g0636600_circ_g.3 Os04g0636600_circ_g.4 						
					
						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
						Os04t0636600-02:8

General Information
CircRNA Name	Os04g0636600_circ_g.1
ID in PlantcircBase	osa_circ_025528
Alias	Os_ciR9599
Organism	Oryza sativa
Position	chr4: 32371471-32375136 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
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.2 Os04g0636600_circ_g.3 Os04g0636600_circ_g.4
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	Os04t0636600-02:8

			
						 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
AGATTTATGTTCAACTGCACCAGCGCTTGATGGATCcttaatggatgaagccacatgagcaaca
gcatgagtcagcataccaccaccacccgctggtataaggctgaaatgcctgactgtttccttca
aggaatta

									
								

					

						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
						
							CTTAATGGATGAAGCCACATGAGCAACAGCATGAGTCAGCATACCACCACCACCCGCTGGTATA
AGGCTGAAATGCCTGACTGTTTCCTTCAAGGAATTAAACTGCAACAAGAAATAATGATATATCA
TTTATTCTGGACTAATTATTGGGTAGCCAAGCCAGTTTTTCTCAGCGAGCATTCATGATTAACA
ACAGTTAATATTTGGAGCAGGTATTTAGGAGCAAAACAAGCAAGAAGGTGGAGGCATCATTAGA
ATTCTCACACAATGATGAATTAATAATGTCGAGCGGTGTGGCACACTAAGTAATAAGGCTATGA
GCTGTAATCATTTATTGCAACACAAGGAACTTACCTTTTGTTTCAAATCCATAGGGGTATCTGA
TCCGTACTCGAGAACATCTTCTGGAATTGATGAAAGAGCCAATTCTAACAGTGAGTCCTTATCA
ATACCTTCAAGAGATTTGCGCAATTGATCCACCTCTGTCCGGATTGGTGATCCAGTGGATAGAG
CATCTTCCAAAGCAAGAGTACCCTGCAAGAAGAGTTACACGTTCAGTTGACATGAACTTAGGAA
GCCTGAAAGAAAAAAGTGAGATGATAACTAAGCTTGAAATACTTGGATGGCATCAAAGTGAGGA
TCTTACCAGAGCAAGCTTATGAACCGAATGACTCTGCCGAGTTTCTTCAGATCGTGCATAAAAC
GCCATGCACAAAGCATCTATCTGAAAAATATGCAAAAAGAAAAAAAGCGAAATTAAAAAAATAC
AAGCAATCTGAACTTCCATGTATTGCACAAATTGTTGTTCTAGCAATGAAAGACATATCAGGAG
ATAGGATAAGAGAGTTCACTATGTCATATTGCTTCACCAGGAGAAACTAGACCAATTAATATAA
AATTATGCTTAATGGTCAATATTTAGGGAAAAACTGACTAATAAAAGCAGAATTGAAAGGTGTA
ACATATAAGGCATAGGACCCCAATAGATGAAATTTGCGTGCTATCATTGGTTCTAGTTCAATAT
GTTAGCACAATATAGAGTGTAGAGTTGCATGATATGAGGAGTTTGATGAGCGATTTTCATATCG
ATAGAACAAACAGTAATTCCATACGTTCAATATGTTAGCACAATATAGAGTGTAGAGTTATGGC
TGCAAGACAAATAGATAGTAAATACAGCATACTGTCAGAGCCTAATGTTGTCTGGACGAATAAT
CATGAGAATTTGAGATAGATATAACCATATAACCTCAAGAAGATATTTGAATGTCAAAATCCGT
ATTTAATTGTACGATCTGATGAGAAAATTTTCAGGATATCATGTACTCCCTCCGTCCCAATTTA
AGTGCACCTAGGACCGGATGTGACATTTCATAGTACAACGAATATGGACAGGCATCCAAACCTA
GGCGCACTTATATTGGGACGGAGGGAGTAGATACTATTTTTTTAATGTATTATGCCTTAGTGTA
TTGCAACATAAAAAATTATCAGCGAGCCAACCTAATCAGTATAGGCACAACCAGACAGCTTAGA
GAGGAACACAGTAAAAAAAAAATATGTGAACACATTCATAAGGTTTATCTTAGCATGCTAAGAC
ATGCTAAGACACTAATTTTTAATGTATTATGCTTTAGTGTATTGCAACATCACAAATTATAAGC
AAGCCAACCTAATAGGCACAACCAGATAGCTTACAGAGGAACACAGTAAAAAAAAAATATGTGA
ACACACCCATAAGGTTTATCACGCTATGAACACAGAGATCATGAGGAAGAACTTCTAAAAAAGT
AAGTTAATTTACTATGAAGAGGGAATTATGGTGGTTTCAATTGCAAAAGGAAATATATAACATT
ATCCTTTGCCCTCAGTGTTCTAATCATTACCACTAAACATGTGCACACTAAATCATCTGTCTTT
CCTGGCCTAACCACCCACAAAAGAAGGAGAGCAAGTCATCCAAGGTAACCCACCAGCTGCAAAT
ATAAATCTGCACCAATATTTTAGGCTATCAAGGCTGCTACCTAGGTGAGTGCTTAAACATGGGG
TCACAGCATGCATTAATATCTAATAGCCAATTAGAACATTGCCTGCAATAAAATAAAAGATAGC
AAAAGTCCATACATTGAGATTTGCTTCAGCAATCTGTTCGATCTGGGATGCTCTCTCTTTTGCA
AGAGCTGCAGCAAGCTCAGCCTTTGCTAACTCGCGAACCTTCTCAACTTGTTGACTTGTTTCCT
CATCCTGTTACATTAGCCATACCAATGTCAACTATGTAATGATTAGCATAAAGAGGGCAGAGAG
TTTATAGCAGATAGAAAACAAATCTGACAGACCTTCTGCTGCAGCTCATCCCTTAGCTTTTGTT
CAGCATTTTCTTGCAGTTCCTTAATCACAGCAGCTGACTTCAATTTCTCTTTCTTCAGCTCCTA
AAACAAAACAAAAGGAGAAAAGAAGATTAAAACCACCACAAAAAAATAATCAATCTGAAATTAA
AATATAAACAAGAGACACGATCTGCATTCTATAGGAAAGAGAGATTATATACAGGTCTAGTGAA
GTGAAGCGAAGGCATATAGAGCAAAAAAATTTTGCTTTTTGTGTAAATTTAAATTACATATCCA
CAGAAAAAATGAAAAGGTTTAACTCCTCCTTCCCTCTCCAAATGTAGGTTGTCATGGTATTCGT
GCAGTCAAACACTTCGAACTTTAAAACTCCATATATGTATATTAGCCACATGGCATCTGAATAT
TTATGTAATTTTTTTCATGATATTATTATTAAAAAACCTATGGTCAAAGTCTTAAAGATAGAGG
ATGAAAAGTAAAAAGGACCTAAATCTTGAGATATAGGTATGCGTCAAGCTGTGTATATTTATAT
AGCTGAGCAGGTCTTTTTTCGGTGAGAAACATTGTTCGCATCCAGCAGAATACAATGTTTATGG
AAACATGATCAAAGAGACTAGCGATAATAAAATATAAAATGTCACAGACCTTGCCAGAATTGCT
GCTTTTCAGCATACATGAGCTCCCGAGCCCTGGTGTCCTTCAGCTCCTTTTCATATTTCTCCTG
AGAAAACATAAGCAGAGTACTGACCATTATAAAATGTAATAGTATAAAATCAAAAGAATCAATT
ATAAACGTCATTTGTCAAATTTGGAACTGCTACAAATCCACAAAACATCAGTTCAACAGAAGAA
AAGAGGGAACATAATACTGTAAATCACAAAGGCATGCTAGTGTTGAAACTCAATGCAGTAAATA
ACGAAGCAGTCATAATATGAAATCGAAAGCAAACCTTCAACTTCCTTTTCTCTTCTGAATACAT
GTAAGCATCTGCATCTGCCTGCTTTCTTTCAGCAGCATGAATAGCCTCTATGATATCAAGTACA
ATTTTCCCATCATCAGAAGTTCCCGTACTAATAACACCATCGTGTTTACTTTCCTTAGCACCCT
GATAACAGAAAACATCAGATATATTAACATTGAAAAGGTACCATTAAATTATTTCTATCAACCT
TGTAATTAGAAAGTATTTCATCGATATTAGTACCACAACAATGACTAAAGAGGAGAGCGTACCA
TGTCTTTAGAATTATCAGGTTCTTGTAGTAAATATGTCTCAGCCAGAGATTTATGTTCAACTGC
ACCAGCGCTTGATGGATC
						
					

			
		

Sequences
Splice junction sequence	AAAGAGGAGAGCGTACCATGTCTTTAGAATTATCAGGTTCTTGTAGTAAATATGTCTCAGCCAG AGATTTATGTTCAACTGCACCAGCGCTTGATGGATCcttaatggatgaagccacatgagcaaca gcatgagtcagcataccaccaccacccgctggtataaggctgaaatgcctgactgtttccttca aggaatta
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	CTTAATGGATGAAGCCACATGAGCAACAGCATGAGTCAGCATACCACCACCACCCGCTGGTATA AGGCTGAAATGCCTGACTGTTTCCTTCAAGGAATTAAACTGCAACAAGAAATAATGATATATCA TTTATTCTGGACTAATTATTGGGTAGCCAAGCCAGTTTTTCTCAGCGAGCATTCATGATTAACA ACAGTTAATATTTGGAGCAGGTATTTAGGAGCAAAACAAGCAAGAAGGTGGAGGCATCATTAGA ATTCTCACACAATGATGAATTAATAATGTCGAGCGGTGTGGCACACTAAGTAATAAGGCTATGA GCTGTAATCATTTATTGCAACACAAGGAACTTACCTTTTGTTTCAAATCCATAGGGGTATCTGA TCCGTACTCGAGAACATCTTCTGGAATTGATGAAAGAGCCAATTCTAACAGTGAGTCCTTATCA ATACCTTCAAGAGATTTGCGCAATTGATCCACCTCTGTCCGGATTGGTGATCCAGTGGATAGAG CATCTTCCAAAGCAAGAGTACCCTGCAAGAAGAGTTACACGTTCAGTTGACATGAACTTAGGAA GCCTGAAAGAAAAAAGTGAGATGATAACTAAGCTTGAAATACTTGGATGGCATCAAAGTGAGGA TCTTACCAGAGCAAGCTTATGAACCGAATGACTCTGCCGAGTTTCTTCAGATCGTGCATAAAAC GCCATGCACAAAGCATCTATCTGAAAAATATGCAAAAAGAAAAAAAGCGAAATTAAAAAAATAC AAGCAATCTGAACTTCCATGTATTGCACAAATTGTTGTTCTAGCAATGAAAGACATATCAGGAG ATAGGATAAGAGAGTTCACTATGTCATATTGCTTCACCAGGAGAAACTAGACCAATTAATATAA AATTATGCTTAATGGTCAATATTTAGGGAAAAACTGACTAATAAAAGCAGAATTGAAAGGTGTA ACATATAAGGCATAGGACCCCAATAGATGAAATTTGCGTGCTATCATTGGTTCTAGTTCAATAT GTTAGCACAATATAGAGTGTAGAGTTGCATGATATGAGGAGTTTGATGAGCGATTTTCATATCG ATAGAACAAACAGTAATTCCATACGTTCAATATGTTAGCACAATATAGAGTGTAGAGTTATGGC TGCAAGACAAATAGATAGTAAATACAGCATACTGTCAGAGCCTAATGTTGTCTGGACGAATAAT CATGAGAATTTGAGATAGATATAACCATATAACCTCAAGAAGATATTTGAATGTCAAAATCCGT ATTTAATTGTACGATCTGATGAGAAAATTTTCAGGATATCATGTACTCCCTCCGTCCCAATTTA AGTGCACCTAGGACCGGATGTGACATTTCATAGTACAACGAATATGGACAGGCATCCAAACCTA GGCGCACTTATATTGGGACGGAGGGAGTAGATACTATTTTTTTAATGTATTATGCCTTAGTGTA TTGCAACATAAAAAATTATCAGCGAGCCAACCTAATCAGTATAGGCACAACCAGACAGCTTAGA GAGGAACACAGTAAAAAAAAAATATGTGAACACATTCATAAGGTTTATCTTAGCATGCTAAGAC ATGCTAAGACACTAATTTTTAATGTATTATGCTTTAGTGTATTGCAACATCACAAATTATAAGC AAGCCAACCTAATAGGCACAACCAGATAGCTTACAGAGGAACACAGTAAAAAAAAAATATGTGA ACACACCCATAAGGTTTATCACGCTATGAACACAGAGATCATGAGGAAGAACTTCTAAAAAAGT AAGTTAATTTACTATGAAGAGGGAATTATGGTGGTTTCAATTGCAAAAGGAAATATATAACATT ATCCTTTGCCCTCAGTGTTCTAATCATTACCACTAAACATGTGCACACTAAATCATCTGTCTTT CCTGGCCTAACCACCCACAAAAGAAGGAGAGCAAGTCATCCAAGGTAACCCACCAGCTGCAAAT ATAAATCTGCACCAATATTTTAGGCTATCAAGGCTGCTACCTAGGTGAGTGCTTAAACATGGGG TCACAGCATGCATTAATATCTAATAGCCAATTAGAACATTGCCTGCAATAAAATAAAAGATAGC AAAAGTCCATACATTGAGATTTGCTTCAGCAATCTGTTCGATCTGGGATGCTCTCTCTTTTGCA AGAGCTGCAGCAAGCTCAGCCTTTGCTAACTCGCGAACCTTCTCAACTTGTTGACTTGTTTCCT CATCCTGTTACATTAGCCATACCAATGTCAACTATGTAATGATTAGCATAAAGAGGGCAGAGAG TTTATAGCAGATAGAAAACAAATCTGACAGACCTTCTGCTGCAGCTCATCCCTTAGCTTTTGTT CAGCATTTTCTTGCAGTTCCTTAATCACAGCAGCTGACTTCAATTTCTCTTTCTTCAGCTCCTA AAACAAAACAAAAGGAGAAAAGAAGATTAAAACCACCACAAAAAAATAATCAATCTGAAATTAA AATATAAACAAGAGACACGATCTGCATTCTATAGGAAAGAGAGATTATATACAGGTCTAGTGAA GTGAAGCGAAGGCATATAGAGCAAAAAAATTTTGCTTTTTGTGTAAATTTAAATTACATATCCA CAGAAAAAATGAAAAGGTTTAACTCCTCCTTCCCTCTCCAAATGTAGGTTGTCATGGTATTCGT GCAGTCAAACACTTCGAACTTTAAAACTCCATATATGTATATTAGCCACATGGCATCTGAATAT TTATGTAATTTTTTTCATGATATTATTATTAAAAAACCTATGGTCAAAGTCTTAAAGATAGAGG ATGAAAAGTAAAAAGGACCTAAATCTTGAGATATAGGTATGCGTCAAGCTGTGTATATTTATAT AGCTGAGCAGGTCTTTTTTCGGTGAGAAACATTGTTCGCATCCAGCAGAATACAATGTTTATGG AAACATGATCAAAGAGACTAGCGATAATAAAATATAAAATGTCACAGACCTTGCCAGAATTGCT GCTTTTCAGCATACATGAGCTCCCGAGCCCTGGTGTCCTTCAGCTCCTTTTCATATTTCTCCTG AGAAAACATAAGCAGAGTACTGACCATTATAAAATGTAATAGTATAAAATCAAAAGAATCAATT ATAAACGTCATTTGTCAAATTTGGAACTGCTACAAATCCACAAAACATCAGTTCAACAGAAGAA AAGAGGGAACATAATACTGTAAATCACAAAGGCATGCTAGTGTTGAAACTCAATGCAGTAAATA ACGAAGCAGTCATAATATGAAATCGAAAGCAAACCTTCAACTTCCTTTTCTCTTCTGAATACAT GTAAGCATCTGCATCTGCCTGCTTTCTTTCAGCAGCATGAATAGCCTCTATGATATCAAGTACA ATTTTCCCATCATCAGAAGTTCCCGTACTAATAACACCATCGTGTTTACTTTCCTTAGCACCCT GATAACAGAAAACATCAGATATATTAACATTGAAAAGGTACCATTAAATTATTTCTATCAACCT TGTAATTAGAAAGTATTTCATCGATATTAGTACCACAACAATGACTAAAGAGGAGAGCGTACCA TGTCTTTAGAATTATCAGGTTCTTGTAGTAAATATGTCTCAGCCAGAGATTTATGTTCAACTGC ACCAGCGCTTGATGGATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.10781002

Conservation Information
Conserved circRNAs	NA
PMCS	0.10781002

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32374849-32371489(+)
32374492-32373861(-)
32371504-32374848(-)
						
						Potential amino acid sequence
						
							MISSTIFPSSEVPVLITPSCLLSLAPMSLELSGSCSKYVSARDLCSTAPALDGSLMDEAT*(+)
MLKSSNSGKELKKEKLKSAAVIKELQENAEQKLRDELQQKDEETSQQVEKVRELAKAELAAALA
KERASQIEQIAEANLNIDALCMAFYARSEETRQSHSVHKLALGTLALEDALSTGSPIRTEVDQL
RKSLEGIDKDSLLELALSSIPEDVLEYGSDTPMDLKQKFNSLKETVRHFSLIPAGGGGMLTHAV
AHVASSIKDPSSAGAVEHKSLAETYLLQEPDNSKDMGAKESKHDGVISTGTSDDGKIVLDIIEA
IHAAERKQADADAYMYSEEKRKLKEKYEKELKDTRARELMYAEKQQFWQGAEEREIEVSCCD*(
-)
MLLLMWLHPLRIHQALVQLNINLWLRHIYYKNLIILKTWVLRKVNTMVLLVRELLMMGKLYLIS
*(-)
						
						Sponge-miRNAs
						
							osa-miR156l-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32374849-32371489(+) 32374492-32373861(-) 32371504-32374848(-)
Potential amino acid sequence	MISSTIFPSSEVPVLITPSCLLSLAPMSLELSGSCSKYVSARDLCSTAPALDGSLMDEAT(+) MLKSSNSGKELKKEKLKSAAVIKELQENAEQKLRDELQQKDEETSQQVEKVRELAKAELAAALA KERASQIEQIAEANLNIDALCMAFYARSEETRQSHSVHKLALGTLALEDALSTGSPIRTEVDQL RKSLEGIDKDSLLELALSSIPEDVLEYGSDTPMDLKQKFNSLKETVRHFSLIPAGGGGMLTHAV AHVASSIKDPSSAGAVEHKSLAETYLLQEPDNSKDMGAKESKHDGVISTGTSDDGKIVLDIIEA IHAAERKQADADAYMYSEEKRKLKEKYEKELKDTRARELMYAEKQQFWQGAEEREIEVSCCD( -) MLLLMWLHPLRIHQALVQLNINLWLRHIYYKNLIILKTWVLRKVNTMVLLVRELLMMGKLYLIS *(-)
Sponge-miRNAs	osa-miR156l-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os04g0636600_circ_g.1

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