Plant Circular RNA Database

Detail information of Os05g0311000_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os05g0311000_circ_g.2
					
						ID in PlantcircBase
						osa_circ_027384
					
						Alias
						Os_ciR3403
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 14192021-14194512  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0311000						
					
						Parent gene annotation
						
							Clathrin adaptor, mu subunit, C-terminal domain containing prote
in. (Os05t0311000-01);Similar to delta-COP. (Os05t0311000-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0310800_circ_ag.1 Os05g0310800_circ_ag.2 Os05g0310900_circ_ag.1 Os05g0310900_circ_ag.2 Os05g0310900_circ_ag.3 Os05g0310900_circ_ag.4 Os05g0310900_circ_ag.5 Os05g0310900_circ_ag.6 Os05g0310900_circ_ag.7 Os05g0310900_circ_ag.8 Os05g0310900_circ_ag.9 Os05g0310900_circ_ag.10 Os05g0310800_circ_g.1 Os05g0311000_circ_g.1 Os05g0311000_circ_g.3 Os05g0311000_circ_g.4 Os05g0311037_circ_g.1 Os05g0311037_circ_g.2 Os05g0311037_circ_g.3 Os05g0311037_circ_g.4 Os05g0311037_circ_g.5 Os05g0311037_circ_g.6 Os05g0311037_circ_g.7 						
					
						Support reads
						3/1
					
						Tissues
						root/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
						Os05t0311000-01:5
Os05t0311000-02:1

General Information
CircRNA Name	Os05g0311000_circ_g.2
ID in PlantcircBase	osa_circ_027384
Alias	Os_ciR3403
Organism	Oryza sativa
Position	chr5: 14192021-14194512 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0311000
Parent gene annotation	Clathrin adaptor, mu subunit, C-terminal domain containing prote in. (Os05t0311000-01);Similar to delta-COP. (Os05t0311000-02)
Parent gene strand	+
Alternative splicing	Os05g0310800_circ_ag.1 Os05g0310800_circ_ag.2 Os05g0310900_circ_ag.1 Os05g0310900_circ_ag.2 Os05g0310900_circ_ag.3 Os05g0310900_circ_ag.4 Os05g0310900_circ_ag.5 Os05g0310900_circ_ag.6 Os05g0310900_circ_ag.7 Os05g0310900_circ_ag.8 Os05g0310900_circ_ag.9 Os05g0310900_circ_ag.10 Os05g0310800_circ_g.1 Os05g0311000_circ_g.1 Os05g0311000_circ_g.3 Os05g0311000_circ_g.4 Os05g0311037_circ_g.1 Os05g0311037_circ_g.2 Os05g0311037_circ_g.3 Os05g0311037_circ_g.4 Os05g0311037_circ_g.5 Os05g0311037_circ_g.6 Os05g0311037_circ_g.7
Support reads	3/1
Tissues	root/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	Os05t0311000-01:5 Os05t0311000-02:1

			
						 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  
						
							GCATTTGGTGACATGAGCATTACTGGTAGTGGATTTGGAAGTGGTTCTGGATTAGGTGGACTGA
GCATGGATATGGACTCATTTGCTAGCAAGCCTAAAGgtgcataattcttgaatccattttaagt
gcagcaattctgagtaccaaaaaatccattcaaaatggtatgcctaatggtttattattctttg
taatatta

									
								

					

						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: 738
Transcript exons: 14192021-14192085,14192213-14192252,14192630-14192853,14
193827-14194069,14194347-14194512
GTGCATAATTCTTGAATCCATTTTAAGTGCAGCAATTCTGAGTACCAAAAAATCCATTCAAAAT
GGTGGTTCTTGCTGCTTCCATCATTTCAAAGTCCGGGAAAGCACTTGTTTCAAGACAGTTTGTT
GACATGTCTCGCATAAGGATTGAAGGATTACTTGCAGCTTTCCCCAAACTGGTTGGAACTGGGA
AGCAGCACACTTATGTTGAGACTGAAAATGTTCGCTATGTTTATCAGCCAATAGAAGGCCTGTA
CTTGCTACTTATCACTAACAAGCAGAGCAATATTCTTGAAGATCTGGACACCTTGAGGCTGCTC
TCTAAGCTTGTGCCTGAATATTCTCCCTCTCTTGATGAGGAGGGTGTTTGTAAAACAGCATTTG
AGCTTATATTTGCCTTCGATGAGGCCATCTGTCTTGGAAATAAGGAAAACGTAACAGTCCAACA
AGTCAAACAATATTGTGAGATGGAGAGCCATGAAGAGAAGGCGCACAAGCTGATGATGCAAAGC
AAAATCAATGAAACAAGGGATGTGATGAAGAAGAAAGCCAGTGAGCTTGATAAGATGAAGATGG
AAAGAGGAAAACTTGACAAAGGAGGATACTCGGCAATATCAGGTCCCAGGGTAGTTGAAAAAGC
ATTTGGTGACATGAGCATTACTGGTAGTGGATTTGGAAGTGGTTCTGGATTAGGTGGACTGAGC
ATGGATATGGACTCATTTGCTAGCAAGCCTAAAG
						
					

						Genomic sequence
						
							GTGCATAATTCTTGAATCCATTTTAAGTGCAGCAATTCTGAGTACCAAAAAATCCATTCAAAAT
GGTATGCCTAATGGTTTATTATTCTTTGTAATATTAAGAAGGGACATTCTGACATTTGCTCTTT
TGCTGGTATAAGCAACTAGTTGATTCGTTTAGGAGAGCTTATTATTGTTTTTTGTGTACCGCAG
GTGGTTCTTGCTGCTTCCATCATTTCAAAGTCCGGGAAAGGTTAGCTGGCTTGAAATATTCTGT
TGTTAATATATTGTATTGCATTATTCTCAGTGAAAAAAAGAAGTCTTTTTAAATTTATATTCTT
ATGTTGTAATCAAAACAAATTCTTTTGTGCATAGAAAAAGAAACTGTTGTATTTGTATAAGTTT
TTACCTGTCACCTGTGCTCATAAGATTGTTAGCTCATATGCAAATTTGTGGAACCCAAATACTA
ATCTAGCCGTTGTCGTGTTGCCTCAGTAGATTCTTAACTCCTATGACCCTAAAATCCTATGTAG
TGAGCACCTCTTGGTTACCAATTTGCTGATGCTTCCTTCCAGAAAGCTAATGTGATTAGACTGA
ATGCTGTTTCTTCTCTGCGCTTTTCAACTGCAGCACTTGTTTCAAGACAGTTTGTTGACATGTC
TCGCATAAGGATTGAAGGATTACTTGCAGCTTTCCCCAAACTGGTTGGAACTGGGAAGCAGCAC
ACTTATGTTGAGACTGAAAATGTTCGCTATGTTTATCAGCCAATAGAAGGCCTGTACTTGCTAC
TTATCACTAACAAGCAGAGCAATATTCTTGAAGATCTGGACACCTTGAGGCTGCTCTCTAAGCT
TGTATCCTTTTTTCCCATATGTTCATTGTTCCAGTTTTTTGACCTAACTAACCTATACAATCCT
ATCCTATGAAACATATGAAACATGGTTTTTTAACCTACACATATATTGCTCTGTAGTGAATAAA
TGTATATCAGATAATGTTACCAACGTTTGTTTTGTGGGATAAAATGAAGATTATAATGTCTCGG
TATAGTTGAGCTTGTCACTATATACCACCAAGGGGACAAAATATCAGATAATGCTATAATATGA
AACATATAAAATTTTTTTCTTTTAACCTACCCATATATTGCAATGTACAGACTAAATATCAGAT
AATGCTATTAATGTTTGTTTTGTAGGACAAAATGAAGATTATAATGTCTTTGTTTAGTTGAGCT
TATCATTATATGTTACCAAGGAGACAAAAGAAAAGTAATTATTGTTTATCATAGTTGCTTGGGA
AATTTGGAAACACTATAATGACTGTGTATTCAATTGAGCGAATCCAAACGTTATGTAGGCGTTG
CGGGCAGTGTCAACAGAAGCTACGCTTTGGTGCCTGGCTGGAGCTCTTGTGCTCCAAGTTTTCC
TTTGTAGGTCGTTATCTTAAGGGCACTAGGCTGTCGTAGGGTGGTTTTTTGGTCATGTGTCGCC
TTGTGTGATGCTATTTGTGGATGTGTTTTGGATGAAGGGCTTGTTAGCGCTTGGTTGTATGGGT
GGTTTGTTTTTCCTTCTTAATGAAATGAAGTGCAGCTCTCCTTTGTTTTCTAAAAAAAACAAAG
AAAATAAAGTCACTACATTAACACAATTCAATTTTGATAAAAAACAACATGCAAGCTATACAAT
CATGAACCTATCATATTTTTTTAATGGAATCTGTTATGTTTTGGGGCTTTATGGATATCCACCG
TTAGAGATGCTACTACACTGCATTGGTTTTCTTTGTTGGCAATAATCAAGTACTGTGATCTCCT
TAACAGTTCCACAGGTGCCTGAATATTCTCCCTCTCTTGATGAGGAGGGTGTTTGTAAAACAGC
ATTTGAGCTTATATTTGCCTTCGATGAGGCCATCTGTCTTGGAAATAAGGAAAACGTAACAGTC
CAACAAGTCAAACAATATTGTGAGATGGAGAGCCATGAAGAGAAGGCGCACAAGCTGATGATGC
AAAGCAAAATCAATGAAACAAGGGATGTGATGAAGAAGAAAGCCAGTGAGCTTGATAAGATGAA
GGTCTGCACTGCACCTTTCTTCAGATTAAAAATACATATTATATCTTCAGAGAAAATAAATGAC
AGTTAATGTAGTTGACTTTGACCATTAGGAAAATCGATATTACATTATTATTGCTAGTTTGACC
TTATGACTCTGTGCTGTTTTACTGCCAGCTTGTCATTTCTTTGGTTACAATTGATATCAGTTCG
CGCAAACTTTAGTGTTTAAAATACAATTGCATTGCCGTTATTTCTTAATGTCTAAGAGGTGAAT
TTTGTGGTCGGTGTTCATGCAGATGGAAAGAGGAAAACTTGACAAAGGAGGATACTCGGCAATA
TCAGGTCCCAGGGTAGTTGAAAAAGCATTTGGTGACATGAGCATTACTGGTAGTGGATTTGGAA
GTGGTTCTGGATTAGGTGGACTGAGCATGGATATGGACTCATTTGCTAGCAAGCCTAAAG
						
					

			
		

Sequences
Splice junction sequence	GCATTTGGTGACATGAGCATTACTGGTAGTGGATTTGGAAGTGGTTCTGGATTAGGTGGACTGA GCATGGATATGGACTCATTTGCTAGCAAGCCTAAAGgtgcataattcttgaatccattttaagt gcagcaattctgagtaccaaaaaatccattcaaaatggtatgcctaatggtttattattctttg taatatta
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: 738 Transcript exons: 14192021-14192085,14192213-14192252,14192630-14192853,14 193827-14194069,14194347-14194512 GTGCATAATTCTTGAATCCATTTTAAGTGCAGCAATTCTGAGTACCAAAAAATCCATTCAAAAT GGTGGTTCTTGCTGCTTCCATCATTTCAAAGTCCGGGAAAGCACTTGTTTCAAGACAGTTTGTT GACATGTCTCGCATAAGGATTGAAGGATTACTTGCAGCTTTCCCCAAACTGGTTGGAACTGGGA AGCAGCACACTTATGTTGAGACTGAAAATGTTCGCTATGTTTATCAGCCAATAGAAGGCCTGTA CTTGCTACTTATCACTAACAAGCAGAGCAATATTCTTGAAGATCTGGACACCTTGAGGCTGCTC TCTAAGCTTGTGCCTGAATATTCTCCCTCTCTTGATGAGGAGGGTGTTTGTAAAACAGCATTTG AGCTTATATTTGCCTTCGATGAGGCCATCTGTCTTGGAAATAAGGAAAACGTAACAGTCCAACA AGTCAAACAATATTGTGAGATGGAGAGCCATGAAGAGAAGGCGCACAAGCTGATGATGCAAAGC AAAATCAATGAAACAAGGGATGTGATGAAGAAGAAAGCCAGTGAGCTTGATAAGATGAAGATGG AAAGAGGAAAACTTGACAAAGGAGGATACTCGGCAATATCAGGTCCCAGGGTAGTTGAAAAAGC ATTTGGTGACATGAGCATTACTGGTAGTGGATTTGGAAGTGGTTCTGGATTAGGTGGACTGAGC ATGGATATGGACTCATTTGCTAGCAAGCCTAAAG
Genomic sequence	GTGCATAATTCTTGAATCCATTTTAAGTGCAGCAATTCTGAGTACCAAAAAATCCATTCAAAAT GGTATGCCTAATGGTTTATTATTCTTTGTAATATTAAGAAGGGACATTCTGACATTTGCTCTTT TGCTGGTATAAGCAACTAGTTGATTCGTTTAGGAGAGCTTATTATTGTTTTTTGTGTACCGCAG GTGGTTCTTGCTGCTTCCATCATTTCAAAGTCCGGGAAAGGTTAGCTGGCTTGAAATATTCTGT TGTTAATATATTGTATTGCATTATTCTCAGTGAAAAAAAGAAGTCTTTTTAAATTTATATTCTT ATGTTGTAATCAAAACAAATTCTTTTGTGCATAGAAAAAGAAACTGTTGTATTTGTATAAGTTT TTACCTGTCACCTGTGCTCATAAGATTGTTAGCTCATATGCAAATTTGTGGAACCCAAATACTA ATCTAGCCGTTGTCGTGTTGCCTCAGTAGATTCTTAACTCCTATGACCCTAAAATCCTATGTAG TGAGCACCTCTTGGTTACCAATTTGCTGATGCTTCCTTCCAGAAAGCTAATGTGATTAGACTGA ATGCTGTTTCTTCTCTGCGCTTTTCAACTGCAGCACTTGTTTCAAGACAGTTTGTTGACATGTC TCGCATAAGGATTGAAGGATTACTTGCAGCTTTCCCCAAACTGGTTGGAACTGGGAAGCAGCAC ACTTATGTTGAGACTGAAAATGTTCGCTATGTTTATCAGCCAATAGAAGGCCTGTACTTGCTAC TTATCACTAACAAGCAGAGCAATATTCTTGAAGATCTGGACACCTTGAGGCTGCTCTCTAAGCT TGTATCCTTTTTTCCCATATGTTCATTGTTCCAGTTTTTTGACCTAACTAACCTATACAATCCT ATCCTATGAAACATATGAAACATGGTTTTTTAACCTACACATATATTGCTCTGTAGTGAATAAA TGTATATCAGATAATGTTACCAACGTTTGTTTTGTGGGATAAAATGAAGATTATAATGTCTCGG TATAGTTGAGCTTGTCACTATATACCACCAAGGGGACAAAATATCAGATAATGCTATAATATGA AACATATAAAATTTTTTTCTTTTAACCTACCCATATATTGCAATGTACAGACTAAATATCAGAT AATGCTATTAATGTTTGTTTTGTAGGACAAAATGAAGATTATAATGTCTTTGTTTAGTTGAGCT TATCATTATATGTTACCAAGGAGACAAAAGAAAAGTAATTATTGTTTATCATAGTTGCTTGGGA AATTTGGAAACACTATAATGACTGTGTATTCAATTGAGCGAATCCAAACGTTATGTAGGCGTTG CGGGCAGTGTCAACAGAAGCTACGCTTTGGTGCCTGGCTGGAGCTCTTGTGCTCCAAGTTTTCC TTTGTAGGTCGTTATCTTAAGGGCACTAGGCTGTCGTAGGGTGGTTTTTTGGTCATGTGTCGCC TTGTGTGATGCTATTTGTGGATGTGTTTTGGATGAAGGGCTTGTTAGCGCTTGGTTGTATGGGT GGTTTGTTTTTCCTTCTTAATGAAATGAAGTGCAGCTCTCCTTTGTTTTCTAAAAAAAACAAAG AAAATAAAGTCACTACATTAACACAATTCAATTTTGATAAAAAACAACATGCAAGCTATACAAT CATGAACCTATCATATTTTTTTAATGGAATCTGTTATGTTTTGGGGCTTTATGGATATCCACCG TTAGAGATGCTACTACACTGCATTGGTTTTCTTTGTTGGCAATAATCAAGTACTGTGATCTCCT TAACAGTTCCACAGGTGCCTGAATATTCTCCCTCTCTTGATGAGGAGGGTGTTTGTAAAACAGC ATTTGAGCTTATATTTGCCTTCGATGAGGCCATCTGTCTTGGAAATAAGGAAAACGTAACAGTC CAACAAGTCAAACAATATTGTGAGATGGAGAGCCATGAAGAGAAGGCGCACAAGCTGATGATGC AAAGCAAAATCAATGAAACAAGGGATGTGATGAAGAAGAAAGCCAGTGAGCTTGATAAGATGAA GGTCTGCACTGCACCTTTCTTCAGATTAAAAATACATATTATATCTTCAGAGAAAATAAATGAC AGTTAATGTAGTTGACTTTGACCATTAGGAAAATCGATATTACATTATTATTGCTAGTTTGACC TTATGACTCTGTGCTGTTTTACTGCCAGCTTGTCATTTCTTTGGTTACAATTGATATCAGTTCG CGCAAACTTTAGTGTTTAAAATACAATTGCATTGCCGTTATTTCTTAATGTCTAAGAGGTGAAT TTTGTGGTCGGTGTTCATGCAGATGGAAAGAGGAAAACTTGACAAAGGAGGATACTCGGCAATA TCAGGTCCCAGGGTAGTTGAAAAAGCATTTGGTGACATGAGCATTACTGGTAGTGGATTTGGAA GTGGTTCTGGATTAGGTGGACTGAGCATGGATATGGACTCATTTGCTAGCAAGCCTAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.245782457

Conservation Information
Conserved circRNAs	NA
PMCS	0.245782457

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14192084-14192025(+)
14192079-14194509(-)
						
						Potential amino acid sequence
						
							MVVLAASIISKSGKALVSRQFVDMSRIRIEGLLAAFPKLVGTGKQHTYVETENVRYVYQPIEGL
YLLLITNKQSNILEDLDTLRLLSKLVPEYSPSLDEEGVCKTAFELIFAFDEAICLGNKENVTVQ
QVKQYCEMESHEEKAHKLMMQSKINETRDVMKKKASELDKMKMERGKLDKGGYSAISGPRVVEK
AFGDMSITGSGFGSGSGLGGLSMDMDSFASKPKGA*(+)
MDFLVLRIAALKMDSRIMHL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14192084-14192025(+) 14192079-14194509(-)
Potential amino acid sequence	MVVLAASIISKSGKALVSRQFVDMSRIRIEGLLAAFPKLVGTGKQHTYVETENVRYVYQPIEGL YLLLITNKQSNILEDLDTLRLLSKLVPEYSPSLDEEGVCKTAFELIFAFDEAICLGNKENVTVQ QVKQYCEMESHEEKAHKLMMQSKINETRDVMKKKASELDKMKMERGKLDKGGYSAISGPRVVEK AFGDMSITGSGFGSGSGLGGLSMDMDSFASKPKGA(+) MDFLVLRIAALKMDSRIMHL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os05g0311000_circ_g.2

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