Plant Circular RNA Database

Detail information of Os04g0685600_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os04g0685600_circ_g.2
					
						ID in PlantcircBase
						osa_circ_026045
					
						Alias
						Os_ciR9695
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr4: 35023536-35026754  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os04g0685600						
					
						Parent gene annotation
						
							Similar to H0723C07.3 protein. (Os04t0685600-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os04g0685600_circ_g.1 Os04g0685600_circ_g.3 Os04g0685600_circ_g.4 Os04g0685600_circ_g.5 Os04g0685600_circ_g.6 Os04g0685600_circ_g.7 Os04g0685600_circ_g.8 						
					
						Support reads
						2/1
					
						Tissues
						root/shoot, 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
						Os04t0685600-01:8

General Information
CircRNA Name	Os04g0685600_circ_g.2
ID in PlantcircBase	osa_circ_026045
Alias	Os_ciR9695
Organism	Oryza sativa
Position	chr4: 35023536-35026754 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os04g0685600
Parent gene annotation	Similar to H0723C07.3 protein. (Os04t0685600-01)
Parent gene strand	-
Alternative splicing	Os04g0685600_circ_g.1 Os04g0685600_circ_g.3 Os04g0685600_circ_g.4 Os04g0685600_circ_g.5 Os04g0685600_circ_g.6 Os04g0685600_circ_g.7 Os04g0685600_circ_g.8
Support reads	2/1
Tissues	root/shoot, 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	Os04t0685600-01:8

			
						 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  
						
							TATTTGAGCTAAAGAAACGCTCAATACTTCTCAACCGATCAACTGCATCTAGAAAACCTTGAAG
ATTTTCATGTGGCCCCTTCTGTATTTCACGCTCTGCctctctttgaccgcagctcttgaagctc
cactgctattgcctccctcacttcctacttgaccactacctcctgatgaagtcaaaccttgacc
agagaggc

									
								

					

						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
						
							CTCTCTTTGACCGCAGCTCTTGAAGCTCCACTGCTATTGCCTCCCTCACTTCCTACTTGACCAC
TACCTCCTGATGAAGTCAAACCTTGACCAGAGAGGCATTGCAAGACCTGTAAAATCGGAATAAT
GCATAGATCTTTAGGCTCACTCTTCCTATTAAACATCAACAATGGTAACAAAATGCAAGAGAAA
CAAACAGTGAGTTTTGTTCAAATATGTCTAGCAAATGGACCTTTGACCAAGCAATCCTTCTATA
ATGATTTGCATTTTGTTGTACAATTCTTCGATGCCTTTGAATCCAGTCATCCCCCAATAAATCT
TTGGCTTCTGATCTGGAAGAAAGAAAAGAGAGCATTAAACTATACCCACTCATCCAGTTACTAA
CCTATTGGCTATTGCGAATTTGTTTATACCTTACTTCATAAGAACATACCTGCGGACAGATTTC
ACGATATAATGAATGTTATTCATCAAAAATATGTGCATCAAAGCTGGATCCTTGTATTGTTTTG
CTTTTGCATCCAGATTATTCTGTAAAGCCTGCATGATACTCATGGTTACAGTGGCCAACTCAGA
ACCTGTTCCATCTTCCCTTTTGAACTCCTGGAAGAGCTGTTTTAGAGTTGACTGGTAGCTGCGA
AAGATTAAATGTTGTCATTTTTTTTGCAAAGCTATAGCCAGTTGCAGCTTGACAAAACAAGACA
TTCTGAAAGAGCATTTAATAGGTACAAAATTGGATATAGATAATGTTTGCAAGAACGGTACAAA
AGAAGTTCAGCTACATTGGAGTGATCTATTTGTTGTCGTATACAGCTGGGGAAAAATAATCTGG
TCTTGGTGAATTAGAAGGCTATCCAATAGAAGAGATACAGCAGCAACGATTGCAAAACACAAAT
ATCAGCATACTGGTGGATAGGATTGAAGAAGAAATGCAAGAAAGTATAGCAATGCAACTATCAA
ATTACAGGAAAGATTAAGTGCACATGATCATATACTTACTCAAATAAAAATTTGACATAGTTAA
TCACGTAGCTCGTCAAAGGATGCACTGTCCCATCAATATGAATATTCTTTGTTGCGTCCTTTTC
AACAGCTTCTTCAAAGTCACTGAAAGTCTTCTGTGCAGTTTGTGCTAAGCATTTTGTCAAACTC
AATGCAGACTCACGCATTTGAGAGCATGATTCTCCAACAAAGATGGTGTCAATCTACACAATCC
ATAAAAAATGTAGATATTACTTATTTCCGTGTCAAGAAAATAGCACCATATCTAAAATAAATTT
ACATTCAGTTGACAGTCTAAATTCTCCATAGTTAGTTAGTTACTATAACATTTGTCTAGTGAAG
TCGTTTTTCATTAAAGAATATGCAAACAAGAAAGTCCAAGTTCCAAAGACCTTGGTGAAAATTG
ATTTCTGGTAAAACGGCGAACTTCAATATAGATGGACCAACAGAGAAATTTTGGAAATATGGCA
CCACACTGTGTCATATAAGTATGATAATGCCCCATGCACTTCTCATACTTTGAAATCTGCAGTG
AGAAGTTTGGCATTTTGCCCCTTTTTTCACAAAGCATTCACAATATCATTTAATCATATGTTTC
TTTTGCAATTTTATCAACCCAAAAATATCAAGCTGTTGAGATCAGTACTGCAGGATTACGTCAA
CCATAAATTGGTCCGATGGCATAAGGAGCTCAAAATTTTTAGAAACTTAAAAACAGATCTTAAC
TCAGCATGCACACACTTATCATTTCGCAGTTCTGCACAAAAGGGTTGTGGCTGGCCAATGAAAC
AATTAATAGATAGCTATGGTATGAATCAGAAACTTACATCTGCTTGAAGTTCACACATTATTTC
ATACATGTCTAGCAGCACAAACAGCTTCTCTGGTGATCTTTTACTCATAGCAATTGCCTCTCCA
AAGCTGAGTAGTGTAGCCAAACTATTCCTAGTTATTTGAGCAAAGCACTTATCCCTCAAAGATT
GACTGCACTCAAAAACCTGGTCACAAAGCTGACGTTCCGCGGCAAAAAGAAGTTTAACCTGTTT
AAAGCAAAAGGTGTCACCAGAGGCATGTTGCACCATACAGTAGATAAGAGAAAAATCCTTACAG
CAATTCGCATGAAGTGAATCCAATTCCCTATTTTAGACTCCAAAATTTCCCATGGCATTTTCTG
CACTTCATCTTTGCTCAGTTTTTCAACACCCAAGCTCTTCAAACTTGACTCTAAAGCAGAGGCA
CGGGCTTCGCTGTGCACAAGAGGAGAAAGTGCTTGAGTATTTTGCCGCATAGGAGGTAGTTAGC
ACATAGGCCATATAAACAAGAAAAATATATAAAGGAATGCAGGAGACAAGTGCTTTAAACTTAT
TCACAGGGAGAACATTTTGTTTTTCCTTTCAGCTGGAACTGGCAGTCCAAACTAAAAAAATCAT
TTTTCATGGTTTTCACAAAGGCCAAAAAAGTTTATAAATATACTCAAATTGACAAGTATGAAAA
TAGCTCGCCTAGCCTTGCTTCTATCTTCAATCAATCAATCTAGACAAACATATGTATTTTCAAC
CCGTTTCATTATTCATGTGAGCATCAAAAGGACAAACAGAACAAAAAATTTCCAGATATTACAA
CAAATTTAGTGTCTAGTATCCATGAAGTGATGAATAGATATATAGCCTGAAAATATTTATCTTC
CTTTTACCTGTATATTTCTGAGCATTGTTGTTGGCATCCCGCTTGTACCAACTGTTGTGCTAAT
TTAGCCAGAAAAGGAATGAACCTTGGCTCAATAAGAGCAGGGGGGCTGTATACAGCTGCTTCCG
AGTTTTGCTGATTTTCAGAATGTGATTGGTTTTTTCCACCTTCAGGATGAGATTCAGATGATGG
TCGAAGCGTACTTGGAAGGCAATCAAAAAGACGATCAGGCTCGATAGGTTTGCTGGAATCAGTC
AGGAGGGTGCAAAATGCAAGTTAGATGATGTTGGGGTTAAAAACATTTAAACTAATAATGAGAC
ACAACCTGCGCTGAGTCAATTGCTTCTGGAATTCATCTTCCATCTTCACAAGGGCCTTAGAAAG
GAGGGCATTCACATGGTTGAGCACACCATCACTGCTTCGGTAGCTCCTATTTGAGCTAAAGAAA
CGCTCAATACTTCTCAACCGATCAACTGCATCTAGAAAACCTTGAAGATTTTCATGTGGCCCCT
TCTGTATTTCACGCTCTGC
						
					

			
		

Sequences
Splice junction sequence	TATTTGAGCTAAAGAAACGCTCAATACTTCTCAACCGATCAACTGCATCTAGAAAACCTTGAAG ATTTTCATGTGGCCCCTTCTGTATTTCACGCTCTGCctctctttgaccgcagctcttgaagctc cactgctattgcctccctcacttcctacttgaccactacctcctgatgaagtcaaaccttgacc agagaggc
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	CTCTCTTTGACCGCAGCTCTTGAAGCTCCACTGCTATTGCCTCCCTCACTTCCTACTTGACCAC TACCTCCTGATGAAGTCAAACCTTGACCAGAGAGGCATTGCAAGACCTGTAAAATCGGAATAAT GCATAGATCTTTAGGCTCACTCTTCCTATTAAACATCAACAATGGTAACAAAATGCAAGAGAAA CAAACAGTGAGTTTTGTTCAAATATGTCTAGCAAATGGACCTTTGACCAAGCAATCCTTCTATA ATGATTTGCATTTTGTTGTACAATTCTTCGATGCCTTTGAATCCAGTCATCCCCCAATAAATCT TTGGCTTCTGATCTGGAAGAAAGAAAAGAGAGCATTAAACTATACCCACTCATCCAGTTACTAA CCTATTGGCTATTGCGAATTTGTTTATACCTTACTTCATAAGAACATACCTGCGGACAGATTTC ACGATATAATGAATGTTATTCATCAAAAATATGTGCATCAAAGCTGGATCCTTGTATTGTTTTG CTTTTGCATCCAGATTATTCTGTAAAGCCTGCATGATACTCATGGTTACAGTGGCCAACTCAGA ACCTGTTCCATCTTCCCTTTTGAACTCCTGGAAGAGCTGTTTTAGAGTTGACTGGTAGCTGCGA AAGATTAAATGTTGTCATTTTTTTTGCAAAGCTATAGCCAGTTGCAGCTTGACAAAACAAGACA TTCTGAAAGAGCATTTAATAGGTACAAAATTGGATATAGATAATGTTTGCAAGAACGGTACAAA AGAAGTTCAGCTACATTGGAGTGATCTATTTGTTGTCGTATACAGCTGGGGAAAAATAATCTGG TCTTGGTGAATTAGAAGGCTATCCAATAGAAGAGATACAGCAGCAACGATTGCAAAACACAAAT ATCAGCATACTGGTGGATAGGATTGAAGAAGAAATGCAAGAAAGTATAGCAATGCAACTATCAA ATTACAGGAAAGATTAAGTGCACATGATCATATACTTACTCAAATAAAAATTTGACATAGTTAA TCACGTAGCTCGTCAAAGGATGCACTGTCCCATCAATATGAATATTCTTTGTTGCGTCCTTTTC AACAGCTTCTTCAAAGTCACTGAAAGTCTTCTGTGCAGTTTGTGCTAAGCATTTTGTCAAACTC AATGCAGACTCACGCATTTGAGAGCATGATTCTCCAACAAAGATGGTGTCAATCTACACAATCC ATAAAAAATGTAGATATTACTTATTTCCGTGTCAAGAAAATAGCACCATATCTAAAATAAATTT ACATTCAGTTGACAGTCTAAATTCTCCATAGTTAGTTAGTTACTATAACATTTGTCTAGTGAAG TCGTTTTTCATTAAAGAATATGCAAACAAGAAAGTCCAAGTTCCAAAGACCTTGGTGAAAATTG ATTTCTGGTAAAACGGCGAACTTCAATATAGATGGACCAACAGAGAAATTTTGGAAATATGGCA CCACACTGTGTCATATAAGTATGATAATGCCCCATGCACTTCTCATACTTTGAAATCTGCAGTG AGAAGTTTGGCATTTTGCCCCTTTTTTCACAAAGCATTCACAATATCATTTAATCATATGTTTC TTTTGCAATTTTATCAACCCAAAAATATCAAGCTGTTGAGATCAGTACTGCAGGATTACGTCAA CCATAAATTGGTCCGATGGCATAAGGAGCTCAAAATTTTTAGAAACTTAAAAACAGATCTTAAC TCAGCATGCACACACTTATCATTTCGCAGTTCTGCACAAAAGGGTTGTGGCTGGCCAATGAAAC AATTAATAGATAGCTATGGTATGAATCAGAAACTTACATCTGCTTGAAGTTCACACATTATTTC ATACATGTCTAGCAGCACAAACAGCTTCTCTGGTGATCTTTTACTCATAGCAATTGCCTCTCCA AAGCTGAGTAGTGTAGCCAAACTATTCCTAGTTATTTGAGCAAAGCACTTATCCCTCAAAGATT GACTGCACTCAAAAACCTGGTCACAAAGCTGACGTTCCGCGGCAAAAAGAAGTTTAACCTGTTT AAAGCAAAAGGTGTCACCAGAGGCATGTTGCACCATACAGTAGATAAGAGAAAAATCCTTACAG CAATTCGCATGAAGTGAATCCAATTCCCTATTTTAGACTCCAAAATTTCCCATGGCATTTTCTG CACTTCATCTTTGCTCAGTTTTTCAACACCCAAGCTCTTCAAACTTGACTCTAAAGCAGAGGCA CGGGCTTCGCTGTGCACAAGAGGAGAAAGTGCTTGAGTATTTTGCCGCATAGGAGGTAGTTAGC ACATAGGCCATATAAACAAGAAAAATATATAAAGGAATGCAGGAGACAAGTGCTTTAAACTTAT TCACAGGGAGAACATTTTGTTTTTCCTTTCAGCTGGAACTGGCAGTCCAAACTAAAAAAATCAT TTTTCATGGTTTTCACAAAGGCCAAAAAAGTTTATAAATATACTCAAATTGACAAGTATGAAAA TAGCTCGCCTAGCCTTGCTTCTATCTTCAATCAATCAATCTAGACAAACATATGTATTTTCAAC CCGTTTCATTATTCATGTGAGCATCAAAAGGACAAACAGAACAAAAAATTTCCAGATATTACAA CAAATTTAGTGTCTAGTATCCATGAAGTGATGAATAGATATATAGCCTGAAAATATTTATCTTC CTTTTACCTGTATATTTCTGAGCATTGTTGTTGGCATCCCGCTTGTACCAACTGTTGTGCTAAT TTAGCCAGAAAAGGAATGAACCTTGGCTCAATAAGAGCAGGGGGGCTGTATACAGCTGCTTCCG AGTTTTGCTGATTTTCAGAATGTGATTGGTTTTTTCCACCTTCAGGATGAGATTCAGATGATGG TCGAAGCGTACTTGGAAGGCAATCAAAAAGACGATCAGGCTCGATAGGTTTGCTGGAATCAGTC AGGAGGGTGCAAAATGCAAGTTAGATGATGTTGGGGTTAAAAACATTTAAACTAATAATGAGAC ACAACCTGCGCTGAGTCAATTGCTTCTGGAATTCATCTTCCATCTTCACAAGGGCCTTAGAAAG GAGGGCATTCACATGGTTGAGCACACCATCACTGCTTCGGTAGCTCCTATTTGAGCTAAAGAAA CGCTCAATACTTCTCAACCGATCAACTGCATCTAGAAAACCTTGAAGATTTTCATGTGGCCCCT TCTGTATTTCACGCTCTGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.121455791

Conservation Information
Conserved circRNAs	NA
PMCS	0.121455791

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							35026726-35023592(+)
35026588-35026705(-)
						
						Potential amino acid sequence
						
							MWPLLYFTLCLSLTAALEAPLLLPPSLPT*(+)
MEDEFQKQLTQRSKPIEPDRLFDCLPSTLRPSSESHPEGGKNQSHSENQQNSEAAVYSPPALIE
PRFIPFLAKLAQQLVQAGCQQQCSEIYSEARASALESSLKSLGVEKLSKDEVQKMPWEILESKI
GNWIHFMRIAVKLLFAAERQLCDQVFECSQSLRDKCFAQITRNSLATLLSFGEAIAMSKRSPEK
LFVLLDMYEIMCELQADIDTIFVGESCSQMRESALSLTKCLAQTAQKTFSDFEEAVEKDATKNI
HIDGTVHPLTSYVINYVKFLFDYQSTLKQLFQEFKREDGTGSELATVTMSIMQALQNNLDAKAK
QYKDPALMHIFLMNNIHYIVKSVRRSEAKDLLGDDWIQRHRRIVQQNANHYRRIAWSKVLQCLS
GQGLTSSGGSGQVGSEGGNSSGASRAAVKERQSVKYRRGHMKIFKVF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	35026726-35023592(+) 35026588-35026705(-)
Potential amino acid sequence	MWPLLYFTLCLSLTAALEAPLLLPPSLPT(+) MEDEFQKQLTQRSKPIEPDRLFDCLPSTLRPSSESHPEGGKNQSHSENQQNSEAAVYSPPALIE PRFIPFLAKLAQQLVQAGCQQQCSEIYSEARASALESSLKSLGVEKLSKDEVQKMPWEILESKI GNWIHFMRIAVKLLFAAERQLCDQVFECSQSLRDKCFAQITRNSLATLLSFGEAIAMSKRSPEK LFVLLDMYEIMCELQADIDTIFVGESCSQMRESALSLTKCLAQTAQKTFSDFEEAVEKDATKNI HIDGTVHPLTSYVINYVKFLFDYQSTLKQLFQEFKREDGTGSELATVTMSIMQALQNNLDAKAK QYKDPALMHIFLMNNIHYIVKSVRRSEAKDLLGDDWIQRHRRIVQQNANHYRRIAWSKVLQCLS GQGLTSSGGSGQVGSEGGNSSGASRAAVKERQSVKYRRGHMKIFKVF(-)
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 Os04g0685600_circ_g.2

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