Plant Circular RNA Database

Detail information of Os06g0275550_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os06g0275550_circ_g.2
					
						ID in PlantcircBase
						osa_circ_030539
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 9356888-9358744  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os06g0275550						
					
						Parent gene annotation
						
							Hypothetical protein. (Os06t0275550-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0275550_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  
						
							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
						Os06t0275500-01:3
Os06t0275500-01:3
Os06t0275550-00:3

General Information
CircRNA Name	Os06g0275550_circ_g.2
ID in PlantcircBase	osa_circ_030539
Alias	NA
Organism	Oryza sativa
Position	chr6: 9356888-9358744 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer
Parent gene	Os06g0275550
Parent gene annotation	Hypothetical protein. (Os06t0275550-00)
Parent gene strand	-
Alternative splicing	Os06g0275550_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	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	Os06t0275500-01:3 Os06t0275500-01:3 Os06t0275550-00:3

			
						 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  
						
							AACATGCACAGATGTTTTTCAGTATATGAATTACATTGAAAACAGCAGTGCATCTGGAGCTCTT
AGTGGTGTTGATTCTCTTGTTAAAGGATATATGAAGactgaaaagcaggcaccattgtgcagct
cggatgagggtacaccatgtggtattcactgttacaaactggtctgtattttataggcatatga
ctgtggaa

									
								

					

						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
						
							ACTGAAAAGCAGGCACCATTGTGCAGCTCGGATGAGGGTACACCATGTGGTATTCACTGTTACA
AACTGGTCTGTATTTTATAGGCATATGACTGTGGAAAAGCAGCTCTTCTTTTATGATGATTTAG
ATATCCGAAACATAAGCATATGCCGTTTTGCTGATCTTTACCTCATTTATAATCTTTTTGTCAG
GTCTCTAAACCAGATGCTATCATGGAGATTGATTCTCATTTGCTTGTTGATGTTGAGGAGCCAA
CATCGGACAATCTAAAGGATCAGATAGGGTCAAATAAGAAAAAGCTTGGTTCTAGTGGGCAGAA
AACAAAATCTCAACAAAGTGAAAGTTCTTCAACTGCAAGGGTTTCCTCAGAAAGCAGTGAGTCT
GAAGTACAACTGTTAAGCAATAAATCCCCGCAACACTCTCCTGGCCTCTCAAAAAATAAGCTTG
GCGCAAAAGGTGGAATCAAGAAAAGTACTAACAGAAGAATTGCTGAGAGAATTCTAATGAGTGT
GAAAAAGGGGCAACAGGAAATGTCACCGGACTCTAATTCTATTGTTAATGGATGCCATTGGCCT
AGGGATATGAAGCTTAGATCTGATACTAGGAGTGGAATTAAGGATTCTGTTGTATCCTCACAGT
GTAATTCTCCAAGCACAAGGAGTTTTAGAAAGAAGGGCACACTTCAAATGGAGAATAACTCATC
TTTTGTGGATGCTCAGAGTGATTCAATGGAGGATACAAATAATGAACATTCAGCAACAGATGGT
TGTGATAGTTCAAGGAAAGAGGAATGTGTTGATGAGAGTATATGCAGGCAAGAAGCTCATGGCA
GGTCCTGGAAAGTGATTGAGCAAGGGCTTCTATTGAAAGGATTAGAGATTTTTGGAAAGAACAG
GTTGGTCCCTTGAAATGATCAGCTTCATATGAATTATTTCACTACCTTCTACTTCATCTTAATA
TTTGTATACTATTGCACAACTAACTGCTGTATCTGTTCAGGACAGAGTAAACGTTAATGTGTCT
AATCCCTCCGTCCCAAAATATAAGGCGTGCTTTGACTTTTAATTGTCAATTTCTCACAAGTATA
CTGTCTATACTCTATAGTGGAACCAACATCATATGAAAGTACATTCAAATATGAATCTGACAAT
ACCATTTTTATATCACTAAACCTATATATTGTCAGACTAGTTGTGAGTCAAGATTTGTAAAATT
TGAATTTTAAAATGCGTGCACACCTTATATTTTGGGGTGGAGGGATTAACCTTTCAGTTCAGCA
CAAGAAACTGACTATGCTTTCTTTTAATATATCTGTATTACTAAAAGTATTCAACACAAATGTC
TATATTTAAAGCAAATGCTCTTGCATCATAATTAGACATCCCCGAAACTATATTCTTATACTAC
TACATTTCAAGTAAAAGCTGTAACATGAAGATACAATCTACAATTTGTCATGCATAACGTATTG
GAATGCGGAATTAACTGGAATTTCTAATGTTTGCATCATTTAGTATCTAGTTGTGTTAGTTATA
GCGTTTCATGTACAAGAAATTCTGATGTATGTTCATTTCAAATGCCTTAAAAACTCATTCCTGT
TTTCTTTGGATGTCTTGCAAGCATATTGGAAATGTTCTTTATCCTTTCTATAATGAGTAGAATA
CCTTGTTTTCCCTAATTTGAATAGTCATACTGAGCCCTTGTTTTTCCTATGTTGAAGTTGTTTA
ATTGCTCGGAACCTTCTGGGTGGGATGAAAACATGCACAGATGTTTTTCAGTATATGAATTACA
TTGAAAACAGCAGTGCATCTGGAGCTCTTAGTGGTGTTGATTCTCTTGTTAAAGGATATATGAA
G
						
					

			
		

Sequences
Splice junction sequence	AACATGCACAGATGTTTTTCAGTATATGAATTACATTGAAAACAGCAGTGCATCTGGAGCTCTT AGTGGTGTTGATTCTCTTGTTAAAGGATATATGAAGactgaaaagcaggcaccattgtgcagct cggatgagggtacaccatgtggtattcactgttacaaactggtctgtattttataggcatatga ctgtggaa
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	ACTGAAAAGCAGGCACCATTGTGCAGCTCGGATGAGGGTACACCATGTGGTATTCACTGTTACA AACTGGTCTGTATTTTATAGGCATATGACTGTGGAAAAGCAGCTCTTCTTTTATGATGATTTAG ATATCCGAAACATAAGCATATGCCGTTTTGCTGATCTTTACCTCATTTATAATCTTTTTGTCAG GTCTCTAAACCAGATGCTATCATGGAGATTGATTCTCATTTGCTTGTTGATGTTGAGGAGCCAA CATCGGACAATCTAAAGGATCAGATAGGGTCAAATAAGAAAAAGCTTGGTTCTAGTGGGCAGAA AACAAAATCTCAACAAAGTGAAAGTTCTTCAACTGCAAGGGTTTCCTCAGAAAGCAGTGAGTCT GAAGTACAACTGTTAAGCAATAAATCCCCGCAACACTCTCCTGGCCTCTCAAAAAATAAGCTTG GCGCAAAAGGTGGAATCAAGAAAAGTACTAACAGAAGAATTGCTGAGAGAATTCTAATGAGTGT GAAAAAGGGGCAACAGGAAATGTCACCGGACTCTAATTCTATTGTTAATGGATGCCATTGGCCT AGGGATATGAAGCTTAGATCTGATACTAGGAGTGGAATTAAGGATTCTGTTGTATCCTCACAGT GTAATTCTCCAAGCACAAGGAGTTTTAGAAAGAAGGGCACACTTCAAATGGAGAATAACTCATC TTTTGTGGATGCTCAGAGTGATTCAATGGAGGATACAAATAATGAACATTCAGCAACAGATGGT TGTGATAGTTCAAGGAAAGAGGAATGTGTTGATGAGAGTATATGCAGGCAAGAAGCTCATGGCA GGTCCTGGAAAGTGATTGAGCAAGGGCTTCTATTGAAAGGATTAGAGATTTTTGGAAAGAACAG GTTGGTCCCTTGAAATGATCAGCTTCATATGAATTATTTCACTACCTTCTACTTCATCTTAATA TTTGTATACTATTGCACAACTAACTGCTGTATCTGTTCAGGACAGAGTAAACGTTAATGTGTCT AATCCCTCCGTCCCAAAATATAAGGCGTGCTTTGACTTTTAATTGTCAATTTCTCACAAGTATA CTGTCTATACTCTATAGTGGAACCAACATCATATGAAAGTACATTCAAATATGAATCTGACAAT ACCATTTTTATATCACTAAACCTATATATTGTCAGACTAGTTGTGAGTCAAGATTTGTAAAATT TGAATTTTAAAATGCGTGCACACCTTATATTTTGGGGTGGAGGGATTAACCTTTCAGTTCAGCA CAAGAAACTGACTATGCTTTCTTTTAATATATCTGTATTACTAAAAGTATTCAACACAAATGTC TATATTTAAAGCAAATGCTCTTGCATCATAATTAGACATCCCCGAAACTATATTCTTATACTAC TACATTTCAAGTAAAAGCTGTAACATGAAGATACAATCTACAATTTGTCATGCATAACGTATTG GAATGCGGAATTAACTGGAATTTCTAATGTTTGCATCATTTAGTATCTAGTTGTGTTAGTTATA GCGTTTCATGTACAAGAAATTCTGATGTATGTTCATTTCAAATGCCTTAAAAACTCATTCCTGT TTTCTTTGGATGTCTTGCAAGCATATTGGAAATGTTCTTTATCCTTTCTATAATGAGTAGAATA CCTTGTTTTCCCTAATTTGAATAGTCATACTGAGCCCTTGTTTTTCCTATGTTGAAGTTGTTTA ATTGCTCGGAACCTTCTGGGTGGGATGAAAACATGCACAGATGTTTTTCAGTATATGAATTACA TTGAAAACAGCAGTGCATCTGGAGCTCTTAGTGGTGTTGATTCTCTTGTTAAAGGATATATGAA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016077 						
					
						PMCS
						0.153571118

Conservation Information
Conserved circRNAs	osi_circ_016077
PMCS	0.153571118

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							9357102-9358741(+)
9357120-9358615(-)
9356935-9358730(-)
						
					

						Potential amino acid sequence
						
							MEIDSHLLVDVEEPTSDNLKDQIGSNKKKLGSSGQKTKSQQSESSSTARVSSESSESEVQLLSN
KSPQHSPGLSKNKLGAKGGIKKSTNRRIAERILMSVKKGQQEMSPDSNSIVNGCHWPRDMKLRS
DTRSGIKDSVVSSQCNSPSTRSFRKKGTLQMENNSSFVDAQSDSMEDTNNEHSATDGCDSSRKE
ECVDESICRQEAHGRSWKVIEQGLLLKGLEIFGKNSCLIARNLLGGMKTCTDVFQYMNYIENSS
ASGALSGVDSLVKGYMKTEKQAPLCSSDEGTPCGIHCYKLVSKPDAIMEIDSHLLVDVEEPTSD
NLKDQIGSNKKKLGSSGQKTKSQQSESSSTARVSSESSESEVQLLSNKSPQHSPGLSKNKLGAK
GGIKKSTNRRIAERILMSVKKGQQEMSPDSNSIVNGCHWPRDMKLRSDTRSGIKDSVVSSQCNS
PSTRSFRKKGTLQMENNSSFVDAQSDSMEDTNNEHSATDGCDSSRKEECVDESICRQEAHGRSW
KVIEQGLLLKGLEIFGKNSCLIARNLLGGMKTCTDVFQYMNYIENSSASGALSGVDSLVKGYMK
TEKQAPLCSSDEGTPCGIHCYKLVSKPDAIMEIDSHLLVDVEEPTSDNLKDQIGSNKKKLGSSG
QKTKSQQSESSSTARVSSESSESEVQLLSNKSPQHSPGLSKNKLGAKGGIKKSTNRRIAERILM
SVKKGQQEMSPDSNSIVNGCHWPRDMKLRSDTRSGIKDSVVSSQCNSPSTRSFRKKGTLQMENN
SSFVDAQSDSMEDTNNEHSATDGCDSSRKEECVDESICRQEAHGRSWKVIEQGLLLKGLEIFGK
NSCLIARNLLGGMKTCTDVFQYMNYIENSSASGALSGVDSLVKGYMKTEKQAPLCSSDEGTPCG
IHCYKLVSKPDAIMEIDSHLLVDVEEPTSDNLKDQIGSNKKKLGSSGQKTKSQQSESSSTARVS
SESSESEVQLLSNKSPQHSPGLSKNKLGAKGGIKKSTNRRIAERILMSVKKGQQEMSPDSNSIV
NGCHWPRDMKLRSDTRSGIKDSVVSSQCNSPSTRSFRKKGTLQMENNSSFVDAQSDSMEDTNNE
HSATDGCDSSRKEECVDESICRQEAHGRSWKVIEQGLLLKGLEIFGKNSCLIARNLLGGMKTCT
DVFQYMNYIENSSASGALSGVDSLVKGYMK(+)
MRINLHDSIWFRDQFVTVNTTWCTLIRAAQWCLLFSLHISFNKRINTTKSSRCTAVFNVIHILK
NICACFHPTQKVPSN*(-)
MVYPHPSCTMVPAFQSSYIL*(-)
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	9357102-9358741(+) 9357120-9358615(-) 9356935-9358730(-)
Potential amino acid sequence	MEIDSHLLVDVEEPTSDNLKDQIGSNKKKLGSSGQKTKSQQSESSSTARVSSESSESEVQLLSN KSPQHSPGLSKNKLGAKGGIKKSTNRRIAERILMSVKKGQQEMSPDSNSIVNGCHWPRDMKLRS DTRSGIKDSVVSSQCNSPSTRSFRKKGTLQMENNSSFVDAQSDSMEDTNNEHSATDGCDSSRKE ECVDESICRQEAHGRSWKVIEQGLLLKGLEIFGKNSCLIARNLLGGMKTCTDVFQYMNYIENSS ASGALSGVDSLVKGYMKTEKQAPLCSSDEGTPCGIHCYKLVSKPDAIMEIDSHLLVDVEEPTSD NLKDQIGSNKKKLGSSGQKTKSQQSESSSTARVSSESSESEVQLLSNKSPQHSPGLSKNKLGAK GGIKKSTNRRIAERILMSVKKGQQEMSPDSNSIVNGCHWPRDMKLRSDTRSGIKDSVVSSQCNS PSTRSFRKKGTLQMENNSSFVDAQSDSMEDTNNEHSATDGCDSSRKEECVDESICRQEAHGRSW KVIEQGLLLKGLEIFGKNSCLIARNLLGGMKTCTDVFQYMNYIENSSASGALSGVDSLVKGYMK TEKQAPLCSSDEGTPCGIHCYKLVSKPDAIMEIDSHLLVDVEEPTSDNLKDQIGSNKKKLGSSG QKTKSQQSESSSTARVSSESSESEVQLLSNKSPQHSPGLSKNKLGAKGGIKKSTNRRIAERILM SVKKGQQEMSPDSNSIVNGCHWPRDMKLRSDTRSGIKDSVVSSQCNSPSTRSFRKKGTLQMENN SSFVDAQSDSMEDTNNEHSATDGCDSSRKEECVDESICRQEAHGRSWKVIEQGLLLKGLEIFGK NSCLIARNLLGGMKTCTDVFQYMNYIENSSASGALSGVDSLVKGYMKTEKQAPLCSSDEGTPCG IHCYKLVSKPDAIMEIDSHLLVDVEEPTSDNLKDQIGSNKKKLGSSGQKTKSQQSESSSTARVS SESSESEVQLLSNKSPQHSPGLSKNKLGAKGGIKKSTNRRIAERILMSVKKGQQEMSPDSNSIV NGCHWPRDMKLRSDTRSGIKDSVVSSQCNSPSTRSFRKKGTLQMENNSSFVDAQSDSMEDTNNE HSATDGCDSSRKEECVDESICRQEAHGRSWKVIEQGLLLKGLEIFGKNSCLIARNLLGGMKTCT DVFQYMNYIENSSASGALSGVDSLVKGYMK(+) MRINLHDSIWFRDQFVTVNTTWCTLIRAAQWCLLFSLHISFNKRINTTKSSRCTAVFNVIHILK NICACFHPTQKVPSN(-) MVYPHPSCTMVPAFQSSYIL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0275550_circ_g.2

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