Plant Circular RNA Database

Detail information of Os06g0156900_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os06g0156900_circ_g.3
					
						ID in PlantcircBase
						osa_circ_029749
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 2903681-2906442  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							Os06g0156900						
					
						Parent gene annotation
						
							Glycosyl transferase, family 31 protein. (Os06t0156900-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os06g0156900_circ_g.1 Os06g0156900_circ_g.2 						
					
						Support reads
						6
					
						Tissues
						root, 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
						Os06t0156900-01:5

General Information
CircRNA Name	Os06g0156900_circ_g.3
ID in PlantcircBase	osa_circ_029749
Alias	NA
Organism	Oryza sativa
Position	chr6: 2903681-2906442 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	Os06g0156900
Parent gene annotation	Glycosyl transferase, family 31 protein. (Os06t0156900-01)
Parent gene strand	+
Alternative splicing	Os06g0156900_circ_g.1 Os06g0156900_circ_g.2
Support reads	6
Tissues	root, 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	Os06t0156900-01:5

			
						 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  
						
							ATGCTTGCTATGAACGTCAACCATGAGAACACACATGCACTTTGTTCACCTGAGTGCACAGAGT
CTTCAATTGCTGTTTGGGATATTCCAAAATGTTCAGattggaggaagcaactggtctggcattc
agatttgtgattggaaaaagtaatgacaagtctaagatggcagctttagaaagagaggttcaag
aatacgat

									
								

					

						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: 593
Transcript exons: 2903681-2903833,2903907-2903989,2904089-2904188,2905588-
2905701,2906300-2906442
ATTGGAGGAAGCAACTGGTCTGGCATTCAGATTTGTGATTGGAAAAAGTAATGACAAGTCTAAG
ATGGCAGCTTTAGAAAGAGAGGTTCAAGAATACGATGATTTCGTGCTTTTAGATCTGGAGGAGG
AGTATAGCAAGCTTCCGTACAAAACGTTAGCTTACTTTAAGGCTGCGTATGCATTGTATGACTC
TGACTTCTATGTTAAAGCTGATGATGATATCTACTTGAGACCAGATAGACTTTCATTGCTTTTG
GCTAAGGAGCGTTCACATACACAAACATACATTGGATGCATGAAGAAGGGGCCTGTTTTTACTG
ACCCAAAGCTGAAATGGTATGAGCCACAATCCTTTTTGCTCGGATCAGAATACTTCCTTCATGC
ATATGGGCCTATTTACGCTTTATCAGCCGATGTGGTGGCAAGCTTGGTTGCCTTGAGGAACAAC
AGTTTCCGTATGTTCAGCAATGAGGATGTTACTATTGGATCCTGGATGCTTGCTATGAACGTCA
ACCATGAGAACACACATGCACTTTGTTCACCTGAGTGCACAGAGTCTTCAATTGCTGTTTGGGA
TATTCCAAAATGTTCAG
						
					

						Genomic sequence
						
							ATTGGAGGAAGCAACTGGTCTGGCATTCAGATTTGTGATTGGAAAAAGTAATGACAAGTCTAAG
ATGGCAGCTTTAGAAAGAGAGGTTCAAGAATACGATGATTTCGTGCTTTTAGATCTGGAGGAGG
AGTATAGCAAGCTTCCGTACAAAACGTAAATAGCAGAACTATTATCATATGCTTTTGTTATTTC
TTCAGAAAGATGCTGATTTATTCTTATGTTGTAGGTTAGCTTACTTTAAGGCTGCGTATGCATT
GTATGACTCTGACTTCTATGTTAAAGCTGATGATGATATCTACTTGAGACCAGGTGCATACCAA
TGCCCTACATATCCTCTTACAGATTTTGACTTGGATATCATATTTTTTTTAATGGCTGGCACTT
TCATTACTGATATCTATTCTGCAGATAGACTTTCATTGCTTTTGGCTAAGGAGCGTTCACATAC
ACAAACATACATTGGATGCATGAAGAAGGGGCCTGTTTTTACTGACCCAAAGCTGAAATGGTCA
GTTCTGTTATTTAGTCTTGTATGACATAATGAACCCCTTTTATGCCATATTGTTTTTTTTATTG
AGAAAGTTTAACTCTATGAAGAAATGCATACAGCATCGTGGCTCATGCTAAGCAAATGTAAATT
AGATAATAAAGAAATTTTTTCGTCCAGATGCGACCCTCACACCTCCACAAAAAAGTTAATAATT
TTATGGTGTCAAAAAATATTTCATCACTGTATAAATATGAACTGAAAATAACTCAGTTTCAGAT
TCGTAATTACGTGTTTACTTCCTCCGTTTCACAATGTAAGTCATTCTAGCATTTCCTATATTCA
TATTGATGTTAATGAATCTAGATAGATATAGATGTCTATATTCATTAACATCAATATGAATGCG
GAATATGCTAGAATGACTTACATTGTGAAACGGAGGGAGTATGTTATATTGTACAAAACCAGAA
CTGCTGGTACCTCAATATCCGGATGGTTTCTCATAAAGTTAAGCACAGACCACACTAGATATGG
TGTGTAAAGCAAGCACTTGATCTGTAGGGTTGGAAGGCGAAGGAAAGGATTAGCAAGGAACGTG
TTTACTTGATTGTTTTTCAGATGTTAATGCGCATGTATCCCAAACTAGATGAATACTCCGTCGC
GTTGCTGCGGAAAATTAAGTTGCATAATATGTACAAATAAGATGTAATTTGATTATCAAAACTA
AAACAATTTGATACAATTTTGAGCCTAAAAATAATTGAGATTGCATGTTTTTAAGAGAGAAGAA
AGAAGAGACAATTTGGATTATAGATCTATCATCCAAAGGCTAGAAATAATTGGGGTGATGTGGC
TTAATGAGAGGAGAGAAATAGCATTAACTACACTTAGTGGGGATGAACTATGTAAGTATAAAGG
ATTCCTGAATCCTAACGACTTTTGTCAGGTTCAACATCTTATCAGTATTATTCGAGGATCAAAG
AAAATCATATATATCCTTCATCAGTTTTGTATTTTGTCACACGCTCCACCCTCCAATTCACCAG
TGCAGCTGTCATTTTTGAATCTGTGCTTAAAATATTGCTAGCTTAGCTGTGCAAGCACTCTTGT
GATCCTACAAGTTGGTGCAAGCACAAAGTGTTCAGTTTGTGAGTCTATTCCCTCCAACGTGATT
TTCAGTTTCCTCTTTGCTATTATAGTTTTAAGACAGTTGTTAGCTTAGCTTTTAGGGTAGTATA
GACAGAATTCTATAACCAAGGCATGTTGCTGTGGCAAATGGTGTGAGGGCATATATGCTGAGTA
TACCACATGCTGTTTGGACTTCAGACTTTCTATTGTTCCACACAGCAAAAATATTCCATGTACC
ATTCATCAATGACTGCTTATCATATTGTTTCTGCTCTTTTTCCAAATGCAGGTATGAGCCACAA
TCCTTTTTGCTCGGATCAGAATACTTCCTTCATGCATATGGGCCTATTTACGCTTTATCAGCCG
ATGTGGTGGCAAGCTTGGTTGCCTTGAGGAACAACAGGTAATTAACAGTACTCATCCTATCTTA
TTGTGAAGCAGCATTCTTCAACTTGCCTTCTCAAACCAGTTAGCCTATGAAATAGTATTCAATG
TTGGTTTGGGTCTATGGTTTCCCTGCTTTGATGGCCAGTGATGGTGAGGCCACCGCTCACTGTA
TGACTAACATGAGCAACACTACTGCACTGCAAATCCATATACTTCTGTAAAGAAGTTGTATTGA
CTGTTACTGCTGTCTTACTGGCTTTCATATTAGCCTTGTTCCCACAATTCTGAGCTATTCTTGG
TAGTTTTAGCCCTCTCATGTAAAAGAAGTGGTGTTTCTTTTCAGCAAAACTTTCCCTTTTCTGG
CTCAACAAATTAAGAGCGAAGGGAAATAGTGTGTGGTTATTGATTAATTGCTCACGATATATTA
AACTCAGAAGCCCTGGAGCCTAAAGTAAACATACTACATGGTTATGTCATGGGCTTCAGCAGTA
GAAGTTTCGTACATAAGACTGTTGTTGCATTCATGTTTTTCATTTTGCATCACTGTTAAACTTC
ATCCACGATCGAGTCACGTTATATGTTTGTTTAATGGATTCTCACATATGTTTCTCCAGTTTCC
GTATGTTCAGCAATGAGGATGTTACTATTGGATCCTGGATGCTTGCTATGAACGTCAACCATGA
GAACACACATGCACTTTGTTCACCTGAGTGCACAGAGTCTTCAATTGCTGTTTGGGATATTCCA
AAATGTTCAG
						
					

			
		

Sequences
Splice junction sequence	ATGCTTGCTATGAACGTCAACCATGAGAACACACATGCACTTTGTTCACCTGAGTGCACAGAGT CTTCAATTGCTGTTTGGGATATTCCAAAATGTTCAGattggaggaagcaactggtctggcattc agatttgtgattggaaaaagtaatgacaagtctaagatggcagctttagaaagagaggttcaag aatacgat
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: 593 Transcript exons: 2903681-2903833,2903907-2903989,2904089-2904188,2905588- 2905701,2906300-2906442 ATTGGAGGAAGCAACTGGTCTGGCATTCAGATTTGTGATTGGAAAAAGTAATGACAAGTCTAAG ATGGCAGCTTTAGAAAGAGAGGTTCAAGAATACGATGATTTCGTGCTTTTAGATCTGGAGGAGG AGTATAGCAAGCTTCCGTACAAAACGTTAGCTTACTTTAAGGCTGCGTATGCATTGTATGACTC TGACTTCTATGTTAAAGCTGATGATGATATCTACTTGAGACCAGATAGACTTTCATTGCTTTTG GCTAAGGAGCGTTCACATACACAAACATACATTGGATGCATGAAGAAGGGGCCTGTTTTTACTG ACCCAAAGCTGAAATGGTATGAGCCACAATCCTTTTTGCTCGGATCAGAATACTTCCTTCATGC ATATGGGCCTATTTACGCTTTATCAGCCGATGTGGTGGCAAGCTTGGTTGCCTTGAGGAACAAC AGTTTCCGTATGTTCAGCAATGAGGATGTTACTATTGGATCCTGGATGCTTGCTATGAACGTCA ACCATGAGAACACACATGCACTTTGTTCACCTGAGTGCACAGAGTCTTCAATTGCTGTTTGGGA TATTCCAAAATGTTCAG
Genomic sequence	ATTGGAGGAAGCAACTGGTCTGGCATTCAGATTTGTGATTGGAAAAAGTAATGACAAGTCTAAG ATGGCAGCTTTAGAAAGAGAGGTTCAAGAATACGATGATTTCGTGCTTTTAGATCTGGAGGAGG AGTATAGCAAGCTTCCGTACAAAACGTAAATAGCAGAACTATTATCATATGCTTTTGTTATTTC TTCAGAAAGATGCTGATTTATTCTTATGTTGTAGGTTAGCTTACTTTAAGGCTGCGTATGCATT GTATGACTCTGACTTCTATGTTAAAGCTGATGATGATATCTACTTGAGACCAGGTGCATACCAA TGCCCTACATATCCTCTTACAGATTTTGACTTGGATATCATATTTTTTTTAATGGCTGGCACTT TCATTACTGATATCTATTCTGCAGATAGACTTTCATTGCTTTTGGCTAAGGAGCGTTCACATAC ACAAACATACATTGGATGCATGAAGAAGGGGCCTGTTTTTACTGACCCAAAGCTGAAATGGTCA GTTCTGTTATTTAGTCTTGTATGACATAATGAACCCCTTTTATGCCATATTGTTTTTTTTATTG AGAAAGTTTAACTCTATGAAGAAATGCATACAGCATCGTGGCTCATGCTAAGCAAATGTAAATT AGATAATAAAGAAATTTTTTCGTCCAGATGCGACCCTCACACCTCCACAAAAAAGTTAATAATT TTATGGTGTCAAAAAATATTTCATCACTGTATAAATATGAACTGAAAATAACTCAGTTTCAGAT TCGTAATTACGTGTTTACTTCCTCCGTTTCACAATGTAAGTCATTCTAGCATTTCCTATATTCA TATTGATGTTAATGAATCTAGATAGATATAGATGTCTATATTCATTAACATCAATATGAATGCG GAATATGCTAGAATGACTTACATTGTGAAACGGAGGGAGTATGTTATATTGTACAAAACCAGAA CTGCTGGTACCTCAATATCCGGATGGTTTCTCATAAAGTTAAGCACAGACCACACTAGATATGG TGTGTAAAGCAAGCACTTGATCTGTAGGGTTGGAAGGCGAAGGAAAGGATTAGCAAGGAACGTG TTTACTTGATTGTTTTTCAGATGTTAATGCGCATGTATCCCAAACTAGATGAATACTCCGTCGC GTTGCTGCGGAAAATTAAGTTGCATAATATGTACAAATAAGATGTAATTTGATTATCAAAACTA AAACAATTTGATACAATTTTGAGCCTAAAAATAATTGAGATTGCATGTTTTTAAGAGAGAAGAA AGAAGAGACAATTTGGATTATAGATCTATCATCCAAAGGCTAGAAATAATTGGGGTGATGTGGC TTAATGAGAGGAGAGAAATAGCATTAACTACACTTAGTGGGGATGAACTATGTAAGTATAAAGG ATTCCTGAATCCTAACGACTTTTGTCAGGTTCAACATCTTATCAGTATTATTCGAGGATCAAAG AAAATCATATATATCCTTCATCAGTTTTGTATTTTGTCACACGCTCCACCCTCCAATTCACCAG TGCAGCTGTCATTTTTGAATCTGTGCTTAAAATATTGCTAGCTTAGCTGTGCAAGCACTCTTGT GATCCTACAAGTTGGTGCAAGCACAAAGTGTTCAGTTTGTGAGTCTATTCCCTCCAACGTGATT TTCAGTTTCCTCTTTGCTATTATAGTTTTAAGACAGTTGTTAGCTTAGCTTTTAGGGTAGTATA GACAGAATTCTATAACCAAGGCATGTTGCTGTGGCAAATGGTGTGAGGGCATATATGCTGAGTA TACCACATGCTGTTTGGACTTCAGACTTTCTATTGTTCCACACAGCAAAAATATTCCATGTACC ATTCATCAATGACTGCTTATCATATTGTTTCTGCTCTTTTTCCAAATGCAGGTATGAGCCACAA TCCTTTTTGCTCGGATCAGAATACTTCCTTCATGCATATGGGCCTATTTACGCTTTATCAGCCG ATGTGGTGGCAAGCTTGGTTGCCTTGAGGAACAACAGGTAATTAACAGTACTCATCCTATCTTA TTGTGAAGCAGCATTCTTCAACTTGCCTTCTCAAACCAGTTAGCCTATGAAATAGTATTCAATG TTGGTTTGGGTCTATGGTTTCCCTGCTTTGATGGCCAGTGATGGTGAGGCCACCGCTCACTGTA TGACTAACATGAGCAACACTACTGCACTGCAAATCCATATACTTCTGTAAAGAAGTTGTATTGA CTGTTACTGCTGTCTTACTGGCTTTCATATTAGCCTTGTTCCCACAATTCTGAGCTATTCTTGG TAGTTTTAGCCCTCTCATGTAAAAGAAGTGGTGTTTCTTTTCAGCAAAACTTTCCCTTTTCTGG CTCAACAAATTAAGAGCGAAGGGAAATAGTGTGTGGTTATTGATTAATTGCTCACGATATATTA AACTCAGAAGCCCTGGAGCCTAAAGTAAACATACTACATGGTTATGTCATGGGCTTCAGCAGTA GAAGTTTCGTACATAAGACTGTTGTTGCATTCATGTTTTTCATTTTGCATCACTGTTAAACTTC ATCCACGATCGAGTCACGTTATATGTTTGTTTAATGGATTCTCACATATGTTTCTCCAGTTTCC GTATGTTCAGCAATGAGGATGTTACTATTGGATCCTGGATGCTTGCTATGAACGTCAACCATGA GAACACACATGCACTTTGTTCACCTGAGTGCACAGAGTCTTCAATTGCTGTTTGGGATATTCCA AAATGTTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_016687 						
					
						PMCS
						0.13701489

Conservation Information
Conserved circRNAs	osi_circ_016687
PMCS	0.13701489

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2906436-2903715(+)
2903746-2903715(+)
2906366-2903728(+)
						
						Potential amino acid sequence
						
							MFRLEEATGLAFRFVIGKSNDKSKMAALEREVQEYDDFVLLDLEEEYSKLPYKTLAYFKAAYAL
YDSDFYVKADDDIYLRPDRLSLLLAKERSHTQTYIGCMKKGPVFTDPKLKWYEPQSFLLGSEYF
LHAYGPIYALSADVVASLVALRNNSFRMFSNEDVTIGSWMLAMNVNHENTHALCSPECTESSIA
VWDIPKCSDWRKQLVWHSDL*(+)
MAALEREVQEYDDFVLLDLEEEYSKLPYKTLAYFKAAYALYDSDFYVKADDDIYLRPDRLSLLL
AKERSHTQTYIGCMKKGPVFTDPKLKWYEPQSFLLGSEYFLHAYGPIYALSADVVASLVALRNN
SFRMFSNEDVTIGSWMLAMNVNHENTHALCSPECTESSIAVWDIPKCSDWRKQLVWHSDL*(+)
MRTHMHFVHLSAQSLQLLFGIFQNVQIGGSNWSGIQICDWKK*(+)
						
						Sponge-miRNAs
						
							osa-miR1425-5p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2906436-2903715(+) 2903746-2903715(+) 2906366-2903728(+)
Potential amino acid sequence	MFRLEEATGLAFRFVIGKSNDKSKMAALEREVQEYDDFVLLDLEEEYSKLPYKTLAYFKAAYAL YDSDFYVKADDDIYLRPDRLSLLLAKERSHTQTYIGCMKKGPVFTDPKLKWYEPQSFLLGSEYF LHAYGPIYALSADVVASLVALRNNSFRMFSNEDVTIGSWMLAMNVNHENTHALCSPECTESSIA VWDIPKCSDWRKQLVWHSDL(+) MAALEREVQEYDDFVLLDLEEEYSKLPYKTLAYFKAAYALYDSDFYVKADDDIYLRPDRLSLLL AKERSHTQTYIGCMKKGPVFTDPKLKWYEPQSFLLGSEYFLHAYGPIYALSADVVASLVALRNN SFRMFSNEDVTIGSWMLAMNVNHENTHALCSPECTESSIAVWDIPKCSDWRKQLVWHSDL(+) MRTHMHFVHLSAQSLQLLFGIFQNVQIGGSNWSGIQICDWKK*(+)
Sponge-miRNAs	osa-miR1425-5p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os06g0156900_circ_g.3

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