Plant Circular RNA Database

Detail information of Os07g0655400_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0655400_circ_g.3
					
						ID in PlantcircBase
						osa_circ_035060
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 27551670-27554187  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0655400						
					
						Parent gene annotation
						
							Protein of unknown function DUF1751, integral membrane, eukaryot
ic domain containing protein. (Os07t0655400-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0655400_circ_g.2 Os07g0655400_circ_g.4 Os07g0655400_circ_g.5 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os07t0655400-01:6

General Information
CircRNA Name	Os07g0655400_circ_g.3
ID in PlantcircBase	osa_circ_035060
Alias	NA
Organism	Oryza sativa
Position	chr7: 27551670-27554187 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0655400
Parent gene annotation	Protein of unknown function DUF1751, integral membrane, eukaryot ic domain containing protein. (Os07t0655400-01)
Parent gene strand	+
Alternative splicing	Os07g0655400_circ_g.2 Os07g0655400_circ_g.4 Os07g0655400_circ_g.5
Support reads	1
Tissues	shoot
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	Os07t0655400-01:6

			
						 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  
						
							GGCTTCTTTGTGGAAGATCTGAAAGGGCTGATGCTAGAGGTCAGACATTGGATACCACACCTTT
GCCTGGTTCAGATTCTATTGAGGCGAACAGAAGAAGggtggaggcttcttcagaggttacacca
agctttgcaagggcctcgctgtcatattgcttctcgtgcaccttttgatccagctttttccatc
agctgtca

									
								

					

						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: 803
Transcript exons: 27551670-27551794,27552402-27552462,27553315-27553481,27
553567-27553678,27553768-27553970,27554053-27554187
GGTGGAGGCTTCTTCAGAGGTTACACCAAGCTTTGCAAGGGCCTCGCTGTCATATTGCTTCTCG
TGCACCTTTTGATCCAGCTTTTTCCATCAGCTGTCACCTATCTTGCTCTTGTTCCTGGAAGGAC
AATCCCTTTTGCCTGGAACCTGATAACTGGTGGCTATGTTGAGCTAACAATTCCAGGGGTTATT
ATCAGCATAGTTGGTCTTCTTTTATTTGGGAAATTATTAGAACCTTTATGGGGCTCAAAGGAGT
TATCGAAGTTCATTTTTGTTGTCAACTTTTCAACATCTTTGTGTGTCTTCATAACTGCTATTGC
TCTATACTACACAACACAAGAAGAGAGCTACCTCTATGCTCCTCTTTCTGGATTTTATGGAGTT
CTGACTGGACTGCTGGTGGGTATCAAGCAGCTTATGTCAGAACAGGAGCTAAATCTTTTTGTGC
TGAAGATTAAGGCAAAGTGGATTCCATCACTTGTTGCATTGATCTCAGTTATTGTAAGCTTCTT
CGTAAAGGAGCTGGTCTCTTACCTCCCAGTTATATTGTTTGGCATTTATATGAGTTGGATTTAC
CTGCGGTACTTCCAAAGGAGATTAGAGACAGGCTTGAAAGGAGACCCAAGCGAAGAGTTCTCTT
TCTCAAGTTTCTTCCCTGAATTTCTAAGACCTGTGCTGGATCCGATAGCTTCAATATTCCACAG
GCTTCTTTGTGGAAGATCTGAAAGGGCTGATGCTAGAGGTCAGACATTGGATACCACACCTTTG
CCTGGTTCAGATTCTATTGAGGCGAACAGAAGAAG
						
					

						Genomic sequence
						
							GGTGGAGGCTTCTTCAGAGGTTACACCAAGCTTTGCAAGGGCCTCGCTGTCATATTGCTTCTCG
TGCACCTTTTGATCCAGCTTTTTCCATCAGCTGTCACCTATCTTGCTCTTGTTCCTGGAAGGTA
CTAACCCAGATCTTTGTATCACTAAGAAATTTTTTGTGTTGGGTCTGACCAGTATCTCGAAAGT
ACTGGTTATTGGTTATGTTGAACTGAAACCTACTTTCTTCATGTAGTGAGCTCGGCTGCTTGTT
TCGTTATTGCCAGCACCCCTTTTATGTTAGTTCTTATAAGTTATAACATGGCCATTTCTTATGT
CAGCATGGATTTGTAGCATCTAATCTGCCTTCTGAAGATATGCTTTTGTTGTATAGTAATGTTC
TGTACCATAGCATCAATCAACATATAAGAACTTGTACAGCTAGTCAACATGGATTTGTAGCAAG
TTATTGTGGCAGTAATAGTTTGTGAGTGTTGTGCTCTATGCAGCACTGTGTTGATATATCCGTT
ATATTGTATTCAGAATTGTATCTCGCACACATCAAATTAATCTGCTTATTTCATTTATGGCAAA
ATGTAAGTATCAGAATGTTCTATAAAATAATTCAATATATTTAGTGCAGATATTAAATAGAATA
TGACTTTCATATGCTGCCTTCTTGCTTCTTGTTAACCATGCTTAATGTTTTGTATACTTCTCAA
TTGAATAGTTAATTTTATTTTCCTACAGGACAATCCCTTTTGCCTGGAACCTGATAACTGGTGG
CTATGTTGAGCTAACAATTCCAGGGGTAAGTTCTTCCCCCAATCATTTATTTGAAGCCTCAATT
TTTTTTTTTGCTGATTTATTTGTTGCCATGTGTGGGACAAGCTAACTGTAGTCTCATACTAGTA
ACAAACTGGATGATATTCGGGTTGGCAGTGGCATAGAATATTCTTTCTACTACCTGGTGTATTG
GAGCTAAATGTTTAAGCCTGTTCAATTCAAATCGAATCATTTTTAAATATGGTGGGGCAATTAC
TTTATTTGGTATCATCTTTGTTTATTCTGCCCACAACTCCTAAGGCTATTGAGTGGAAAGTTTC
TGTAAGAATAATTGTATCGTGTATATCTTGTTTGTTTTCCCGCACGATGACCTATTTGCCTATT
TATGGTACTTGCCACAAATAAATACATCTAGCTGTGCGTTACCTATATTATTTTATGCCTCTTA
TTGCTAATGATAATGAGTACAGTTCTACTTGGCTGTTGCTTCTCCTGGACTACATAATTTGTTG
GTTCATAGTTTCTTCTTTATGTTACACAAAAGATGCTCCCTTTGTTCTTTTTTTTAATGATGTT
ATTGATGTTTCACGGTCTCAATGATGTGATTTTGACCATTTTCCTATAGTTGATCAATATGCAG
TAATATAAGGGGAAATTCCAGGATTTGTCACTCAATCTCTCATTGGCATGTGGTCCTAGGACCT
AAAGGCTTCTTGTTAAGTTCCATATTTGTGCACTTTTAGATGATCCTAGTTTTCAAGTATATAG
AACTGAGCGAGTACTGTAAGATTTGTAGATTCATCTTCTTCGGGGCCCTTGTTAAGACTATACC
TAAGTAATTGAGCTCCCTCAACTCACTCTAACATTGTGCTTTCAGGTTATTATCAGCATAGTTG
GTCTTCTTTTATTTGGGAAATTATTAGAACCTTTATGGGGCTCAAAGGAGTTATCGAAGTTCAT
TTTTGTTGTCAACTTTTCAACATCTTTGTGTGTCTTCATAACTGCTATTGCTCTATACTACACA
ACACAAGAAGAGAGCTACCTGTAAGTATTTTTGTTTCTATACTAGCATGCATATTTATTGTTCC
TTGTTTGCTAGACTAATGAATTTGTACTTTTGATTTTTCAGCTATGCTCCTCTTTCTGGATTTT
ATGGAGTTCTGACTGGACTGCTGGTGGGTATCAAGCAGCTTATGTCAGAACAGGAGCTAAATCT
TTTTGTGCTGAAGATTAAGGCAAAGGTTTGCATCTACTATTGTTAATGGAATGACTAAATTTCA
CAGTTATGTGTTTGATTTGATCTGACGTTTATTTTTTCCTGGCTGCACAGTGGATTCCATCACT
TGTTGCATTGATCTCAGTTATTGTAAGCTTCTTCGTAAAGGAGCTGGTCTCTTACCTCCCAGTT
ATATTGTTTGGCATTTATATGAGTTGGATTTACCTGCGGTACTTCCAAAGGAGATTAGAGACAG
GCTTGAAAGGAGACCCAAGCGAAGAGTTCTCTTTCTCAAGTTTCTTCCCTGAATTTCTAAGGTA
GTCCAAATCTCCCTCTTTATATAACTTTGATTGATTTGTAGTTTGGAAGAATATCCTGACCAAT
TAATTGAACATGCAGACCTGTGCTGGATCCGATAGCTTCAATATTCCACAGGCTTCTTTGTGGA
AGATCTGAAAGGGCTGATGCTAGAGGTCAGACATTGGATACCACACCTTTGCCTGGTTCAGATT
CTATTGAGGCGAACAGAAGAAG
						
					

			
		

Sequences
Splice junction sequence	GGCTTCTTTGTGGAAGATCTGAAAGGGCTGATGCTAGAGGTCAGACATTGGATACCACACCTTT GCCTGGTTCAGATTCTATTGAGGCGAACAGAAGAAGggtggaggcttcttcagaggttacacca agctttgcaagggcctcgctgtcatattgcttctcgtgcaccttttgatccagctttttccatc agctgtca
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: 803 Transcript exons: 27551670-27551794,27552402-27552462,27553315-27553481,27 553567-27553678,27553768-27553970,27554053-27554187 GGTGGAGGCTTCTTCAGAGGTTACACCAAGCTTTGCAAGGGCCTCGCTGTCATATTGCTTCTCG TGCACCTTTTGATCCAGCTTTTTCCATCAGCTGTCACCTATCTTGCTCTTGTTCCTGGAAGGAC AATCCCTTTTGCCTGGAACCTGATAACTGGTGGCTATGTTGAGCTAACAATTCCAGGGGTTATT ATCAGCATAGTTGGTCTTCTTTTATTTGGGAAATTATTAGAACCTTTATGGGGCTCAAAGGAGT TATCGAAGTTCATTTTTGTTGTCAACTTTTCAACATCTTTGTGTGTCTTCATAACTGCTATTGC TCTATACTACACAACACAAGAAGAGAGCTACCTCTATGCTCCTCTTTCTGGATTTTATGGAGTT CTGACTGGACTGCTGGTGGGTATCAAGCAGCTTATGTCAGAACAGGAGCTAAATCTTTTTGTGC TGAAGATTAAGGCAAAGTGGATTCCATCACTTGTTGCATTGATCTCAGTTATTGTAAGCTTCTT CGTAAAGGAGCTGGTCTCTTACCTCCCAGTTATATTGTTTGGCATTTATATGAGTTGGATTTAC CTGCGGTACTTCCAAAGGAGATTAGAGACAGGCTTGAAAGGAGACCCAAGCGAAGAGTTCTCTT TCTCAAGTTTCTTCCCTGAATTTCTAAGACCTGTGCTGGATCCGATAGCTTCAATATTCCACAG GCTTCTTTGTGGAAGATCTGAAAGGGCTGATGCTAGAGGTCAGACATTGGATACCACACCTTTG CCTGGTTCAGATTCTATTGAGGCGAACAGAAGAAG
Genomic sequence	GGTGGAGGCTTCTTCAGAGGTTACACCAAGCTTTGCAAGGGCCTCGCTGTCATATTGCTTCTCG TGCACCTTTTGATCCAGCTTTTTCCATCAGCTGTCACCTATCTTGCTCTTGTTCCTGGAAGGTA CTAACCCAGATCTTTGTATCACTAAGAAATTTTTTGTGTTGGGTCTGACCAGTATCTCGAAAGT ACTGGTTATTGGTTATGTTGAACTGAAACCTACTTTCTTCATGTAGTGAGCTCGGCTGCTTGTT TCGTTATTGCCAGCACCCCTTTTATGTTAGTTCTTATAAGTTATAACATGGCCATTTCTTATGT CAGCATGGATTTGTAGCATCTAATCTGCCTTCTGAAGATATGCTTTTGTTGTATAGTAATGTTC TGTACCATAGCATCAATCAACATATAAGAACTTGTACAGCTAGTCAACATGGATTTGTAGCAAG TTATTGTGGCAGTAATAGTTTGTGAGTGTTGTGCTCTATGCAGCACTGTGTTGATATATCCGTT ATATTGTATTCAGAATTGTATCTCGCACACATCAAATTAATCTGCTTATTTCATTTATGGCAAA ATGTAAGTATCAGAATGTTCTATAAAATAATTCAATATATTTAGTGCAGATATTAAATAGAATA TGACTTTCATATGCTGCCTTCTTGCTTCTTGTTAACCATGCTTAATGTTTTGTATACTTCTCAA TTGAATAGTTAATTTTATTTTCCTACAGGACAATCCCTTTTGCCTGGAACCTGATAACTGGTGG CTATGTTGAGCTAACAATTCCAGGGGTAAGTTCTTCCCCCAATCATTTATTTGAAGCCTCAATT TTTTTTTTTGCTGATTTATTTGTTGCCATGTGTGGGACAAGCTAACTGTAGTCTCATACTAGTA ACAAACTGGATGATATTCGGGTTGGCAGTGGCATAGAATATTCTTTCTACTACCTGGTGTATTG GAGCTAAATGTTTAAGCCTGTTCAATTCAAATCGAATCATTTTTAAATATGGTGGGGCAATTAC TTTATTTGGTATCATCTTTGTTTATTCTGCCCACAACTCCTAAGGCTATTGAGTGGAAAGTTTC TGTAAGAATAATTGTATCGTGTATATCTTGTTTGTTTTCCCGCACGATGACCTATTTGCCTATT TATGGTACTTGCCACAAATAAATACATCTAGCTGTGCGTTACCTATATTATTTTATGCCTCTTA TTGCTAATGATAATGAGTACAGTTCTACTTGGCTGTTGCTTCTCCTGGACTACATAATTTGTTG GTTCATAGTTTCTTCTTTATGTTACACAAAAGATGCTCCCTTTGTTCTTTTTTTTAATGATGTT ATTGATGTTTCACGGTCTCAATGATGTGATTTTGACCATTTTCCTATAGTTGATCAATATGCAG TAATATAAGGGGAAATTCCAGGATTTGTCACTCAATCTCTCATTGGCATGTGGTCCTAGGACCT AAAGGCTTCTTGTTAAGTTCCATATTTGTGCACTTTTAGATGATCCTAGTTTTCAAGTATATAG AACTGAGCGAGTACTGTAAGATTTGTAGATTCATCTTCTTCGGGGCCCTTGTTAAGACTATACC TAAGTAATTGAGCTCCCTCAACTCACTCTAACATTGTGCTTTCAGGTTATTATCAGCATAGTTG GTCTTCTTTTATTTGGGAAATTATTAGAACCTTTATGGGGCTCAAAGGAGTTATCGAAGTTCAT TTTTGTTGTCAACTTTTCAACATCTTTGTGTGTCTTCATAACTGCTATTGCTCTATACTACACA ACACAAGAAGAGAGCTACCTGTAAGTATTTTTGTTTCTATACTAGCATGCATATTTATTGTTCC TTGTTTGCTAGACTAATGAATTTGTACTTTTGATTTTTCAGCTATGCTCCTCTTTCTGGATTTT ATGGAGTTCTGACTGGACTGCTGGTGGGTATCAAGCAGCTTATGTCAGAACAGGAGCTAAATCT TTTTGTGCTGAAGATTAAGGCAAAGGTTTGCATCTACTATTGTTAATGGAATGACTAAATTTCA CAGTTATGTGTTTGATTTGATCTGACGTTTATTTTTTCCTGGCTGCACAGTGGATTCCATCACT TGTTGCATTGATCTCAGTTATTGTAAGCTTCTTCGTAAAGGAGCTGGTCTCTTACCTCCCAGTT ATATTGTTTGGCATTTATATGAGTTGGATTTACCTGCGGTACTTCCAAAGGAGATTAGAGACAG GCTTGAAAGGAGACCCAAGCGAAGAGTTCTCTTTCTCAAGTTTCTTCCCTGAATTTCTAAGGTA GTCCAAATCTCCCTCTTTATATAACTTTGATTGATTTGTAGTTTGGAAGAATATCCTGACCAAT TAATTGAACATGCAGACCTGTGCTGGATCCGATAGCTTCAATATTCCACAGGCTTCTTTGTGGA AGATCTGAAAGGGCTGATGCTAGAGGTCAGACATTGGATACCACACCTTTGCCTGGTTCAGATT CTATTGAGGCGAACAGAAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.229914376

Conservation Information
Conserved circRNAs	NA
PMCS	0.229914376

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27553632-27551742(+)
27554119-27552443(+)
						
						Potential amino acid sequence
						
							MSEQELNLFVLKIKAKWIPSLVALISVIVSFFVKELVSYLPVILFGIYMSWIYLRYFQRRLETG
LKGDPSEEFSFSSFFPEFLRPVLDPIASIFHRLLCGRSERADARGQTLDTTPLPGSDSIEANRR
RVEASSEVTPSFARASLSYCFSCTF*(+)
MLEVRHWIPHLCLVQILLRRTEEGWRLLQRLHQALQGPRCHIASRAPFDPAFSISCHLSCSCSW
KDNPFCLEPDNWWLC*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27553632-27551742(+) 27554119-27552443(+)
Potential amino acid sequence	MSEQELNLFVLKIKAKWIPSLVALISVIVSFFVKELVSYLPVILFGIYMSWIYLRYFQRRLETG LKGDPSEEFSFSSFFPEFLRPVLDPIASIFHRLLCGRSERADARGQTLDTTPLPGSDSIEANRR RVEASSEVTPSFARASLSYCFSCTF(+) MLEVRHWIPHLCLVQILLRRTEEGWRLLQRLHQALQGPRCHIASRAPFDPAFSISCHLSCSCSW KDNPFCLEPDNWWLC(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0655400_circ_g.3

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