Plant Circular RNA Database

Detail information of Os03g0441000_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os03g0441000_circ_g.4
					
						ID in PlantcircBase
						osa_circ_020442
					
						Alias
						Os_ciR8618
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 18642731-18644391  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0441000						
					
						Parent gene annotation
						
							Similar to Transcription initiation factor TFIID component TAF4 
family protein, expressed. (Os03t0441000-01);Similar to Transcri
ption initiation factor TFIID component TAF4 family protein, exp
ressed. (Os03t0441000-02);Similar to Transcription initiation fa
ctor TFIID component TAF4 family protein, expressed. (Os03t04410
00-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0441000_circ_g.1 Os03g0441000_circ_g.2 Os03g0441000_circ_g.3 Os03g0441000_circ_g.5 						
					
						Support reads
						2
					
						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  
						
							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
						Os03t0441000-02:4
Os03t0441000-01:4
Os03t0441000-03:2

General Information
CircRNA Name	Os03g0441000_circ_g.4
ID in PlantcircBase	osa_circ_020442
Alias	Os_ciR8618
Organism	Oryza sativa
Position	chr3: 18642731-18644391 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os03g0441000
Parent gene annotation	Similar to Transcription initiation factor TFIID component TAF4 family protein, expressed. (Os03t0441000-01);Similar to Transcri ption initiation factor TFIID component TAF4 family protein, exp ressed. (Os03t0441000-02);Similar to Transcription initiation fa ctor TFIID component TAF4 family protein, expressed. (Os03t04410 00-03)
Parent gene strand	-
Alternative splicing	Os03g0441000_circ_g.1 Os03g0441000_circ_g.2 Os03g0441000_circ_g.3 Os03g0441000_circ_g.5
Support reads	2
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	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	Os03t0441000-02:4 Os03t0441000-01:4 Os03t0441000-03:2

			
						 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  
						
							TGTTGTTGGTTCTCCTGGTTTCCAATTTCATTCTTTACTGAACCCTGCCACTGTTCATGATTGT
GGGTGAACATTGAATTGCTCTCCTGAGGCACAAGACctgcatgtttggttctgcttgagtgcca
tgagatcgatgaggctgacttgagtttgttgtgttgaaagatttagaagtacctgatgttgatg
gttggttt

									
								

					

						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: 1235
Transcript exons: 18642731-18642847,18642944-18643549,18643772-18643867,18
643976-18644391
CTGCATGTTTGGTTCTGCTTGAGTGCCATGAGATCGATGAGGCTGACTTGAGTTTGTTGTGTTG
AAAGATTTAGAAGTACCTGATGTTGATGGTTGGTTTTCAGGAACACCAACACCCTTATTTGTGT
GTTCTGTTGGAGGGAAAGATTTAGTTTTCTGCTCTTTGTTTACTTGTTGCCATGGAGATATATT
AGTTTGCAACGTTGGTCGTGCTGCCATGCTCCCAGTCACTGAGGTAACAGCTCCCTGGACTAAT
TGTCCTCTTTGACTGGAATCTGCCATTTGTGGTCTAAGTGGTACAATTGGACCTCCAACTGGTC
GTGGCAATGGACGAGCATGAATATTATTTGACCCAAGCACAGGTAAAGATGTTTGTGGATGCTG
TGTTGCTTGCCCTGGGGCTGATTGTATATTGTGTGGATGGCTGAGCATATGCCCCCCTTTCACA
TCTGACATGTTACTAGATTCATTAACCTTTTGCAAATTGCTTTCTGAAGATGGATAGCCCATGT
TACTTTGCATTTGGCCTGACAAAGAAGGTCGGAAAAAAGGTGGTCTTGGGCTGTCACTAGCTTG
GTTTGCAGGAATGGAATGAGCTGACGGATATGATTTGTGCTCAACTCCTGACGTAGAACCACTG
GGAACATTCTGCTGATTGGAAACTTGACTTAACAAAGAATAGTTGCTTGGATTTGTCTGTGGAT
TCCGTTGCCCATGAGCAGCCTGAGCTTGATATTGTGCAGCAGCTTGTTTGAGCAACTTATCGCC
AACAATAGTCCTTACAACTTTGAGAAAGTGTTCCTTGCTAACTTCATTTTTCCGCAACTTTGTA
AAAATGGACTGAACTTGCATATCCTTGTCTTTGTCAAGGTGCCGTCTCAAAATTGGTATTAACA
TATGAAATGTAACAACAGGAGGTTTCCCCACCGTAGGAGCACTATTAGTTTGATTTGTGCTTGG
TGTTTGTTGACTCCTCATCTGTTGCAAAGGCTGCTTCTGACCAGAATTACTTTGTTGAGAACTG
TTTCCTGGCTCTTGCTTAACCTTTGGCTGGTCTTGTTTATTATCAGCACCCCCAGATACCAGTT
CAGGCCTAGATGGCTGCTCATTTGAATGATGCAAATGTTTCTGTTCCTGTTGTTGGTTCTCCTG
GTTTCCAATTTCATTCTTTACTGAACCCTGCCACTGTTCATGATTGTGGGTGAACATTGAATTG
CTCTCCTGAGGCACAAGAC
						
					

						Genomic sequence
						
							CTGCATGTTTGGTTCTGCTTGAGTGCCATGAGATCGATGAGGCTGACTTGAGTTTGTTGTGTTG
AAAGATTTAGAAGTACCTGATGTTGATGGTTGGTTTTCAGGAACACCAACACCCTTACATCCAA
AGGCTGTGTTAACTTGATTTACATGCATGGAGGCGCAAAAAAAAAAAAACACTTACGTAGATTC
AGAGCATTAGATTTCAGTTACCTTATTTGTGTGTTCTGTTGGAGGGAAAGATTTAGTTTTCTGC
TCTTTGTTTACTTGTTGCCATGGAGATATATTAGTTTGCAACGTTGGTCGTGCTGCCATGCTCC
CAGTCACTGAGGTAACAGCTCCCTGGACTAATTGTCCTCTTTGACTGGAATCTGCCATTTGTGG
TCTAAGTGGTACAATTGGACCTCCAACTGGTCGTGGCAATGGACGAGCATGAATATTATTTGAC
CCAAGCACAGGTAAAGATGTTTGTGGATGCTGTGTTGCTTGCCCTGGGGCTGATTGTATATTGT
GTGGATGGCTGAGCATATGCCCCCCTTTCACATCTGACATGTTACTAGATTCATTAACCTTTTG
CAAATTGCTTTCTGAAGATGGATAGCCCATGTTACTTTGCATTTGGCCTGACAAAGAAGGTCGG
AAAAAAGGTGGTCTTGGGCTGTCACTAGCTTGGTTTGCAGGAATGGAATGAGCTGACGGATATG
ATTTGTGCTCAACTCCTGACGTAGAACCACTGGGAACATTCTGCTGATTGGAAACTTGACTTAA
CAAAGAATAGTTGCTTGGATTTGTCTGTGGATTCCGTTGCCCATGAGCAGCCTGCAGCCAAACA
AGACCAGAATAACTCCCAAGAAAAACAGATTGTGATGGTAAGAACAACAATAGCAGTACAGAAA
GTGGTGATAGATAGATTGACCTAACTTAAAGAATAGATAGATTGACCTAACTTACGCACTAACT
GCACAATGTAAAGTGGCAGTCAGTTACCTGCAATGGGGGAGAGGTCTCAAATGAACCCTAATAA
ATTGAAACTTTAGTTACCTGAGCTTGATATTGTGCAGCAGCTTGTTTGAGCAACTTATCGCCAA
CAATAGTCCTTACAACTTTGAGAAAGTGTTCCTTGCTAACTTCATTTTTCTATCGAAAATAAAG
GATATCTTTATGCGATAAGTATAGTTGAGTAATCAGTTATGCAATAATATTCTATTTGTTTTTT
TTTTAATTCAGCATAGTTCAGGAACCAACCCGCAACTTTGTAAAAATGGACTGAACTTGCATAT
CCTTGTCTTTGTCAAGGTGCCGTCTCAAAATTGGTATTAACATATGAAATGTAACAACAGGAGG
TTTCCCCACCGTAGGAGCACTATTAGTTTGATTTGTGCTTGGTGTTTGTTGACTCCTCATCTGT
TGCAAAGGCTGCTTCTGACCAGAATTACTTTGTTGAGAACTGTTTCCTGGCTCTTGCTTAACCT
TTGGCTGGTCTTGTTTATTATCAGCACCCCCAGATACCAGTTCAGGCCTAGATGGCTGCTCATT
TGAATGATGCAAATGTTTCTGTTCCTGTTGTTGGTTCTCCTGGTTTCCAATTTCATTCTTTACT
GAACCCTGCCACTGTTCATGATTGTGGGTGAACATTGAATTGCTCTCCTGAGGCACAAGAC
						
					

			
		

Sequences
Splice junction sequence	TGTTGTTGGTTCTCCTGGTTTCCAATTTCATTCTTTACTGAACCCTGCCACTGTTCATGATTGT GGGTGAACATTGAATTGCTCTCCTGAGGCACAAGACctgcatgtttggttctgcttgagtgcca tgagatcgatgaggctgacttgagtttgttgtgttgaaagatttagaagtacctgatgttgatg gttggttt
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: 1235 Transcript exons: 18642731-18642847,18642944-18643549,18643772-18643867,18 643976-18644391 CTGCATGTTTGGTTCTGCTTGAGTGCCATGAGATCGATGAGGCTGACTTGAGTTTGTTGTGTTG AAAGATTTAGAAGTACCTGATGTTGATGGTTGGTTTTCAGGAACACCAACACCCTTATTTGTGT GTTCTGTTGGAGGGAAAGATTTAGTTTTCTGCTCTTTGTTTACTTGTTGCCATGGAGATATATT AGTTTGCAACGTTGGTCGTGCTGCCATGCTCCCAGTCACTGAGGTAACAGCTCCCTGGACTAAT TGTCCTCTTTGACTGGAATCTGCCATTTGTGGTCTAAGTGGTACAATTGGACCTCCAACTGGTC GTGGCAATGGACGAGCATGAATATTATTTGACCCAAGCACAGGTAAAGATGTTTGTGGATGCTG TGTTGCTTGCCCTGGGGCTGATTGTATATTGTGTGGATGGCTGAGCATATGCCCCCCTTTCACA TCTGACATGTTACTAGATTCATTAACCTTTTGCAAATTGCTTTCTGAAGATGGATAGCCCATGT TACTTTGCATTTGGCCTGACAAAGAAGGTCGGAAAAAAGGTGGTCTTGGGCTGTCACTAGCTTG GTTTGCAGGAATGGAATGAGCTGACGGATATGATTTGTGCTCAACTCCTGACGTAGAACCACTG GGAACATTCTGCTGATTGGAAACTTGACTTAACAAAGAATAGTTGCTTGGATTTGTCTGTGGAT TCCGTTGCCCATGAGCAGCCTGAGCTTGATATTGTGCAGCAGCTTGTTTGAGCAACTTATCGCC AACAATAGTCCTTACAACTTTGAGAAAGTGTTCCTTGCTAACTTCATTTTTCCGCAACTTTGTA AAAATGGACTGAACTTGCATATCCTTGTCTTTGTCAAGGTGCCGTCTCAAAATTGGTATTAACA TATGAAATGTAACAACAGGAGGTTTCCCCACCGTAGGAGCACTATTAGTTTGATTTGTGCTTGG TGTTTGTTGACTCCTCATCTGTTGCAAAGGCTGCTTCTGACCAGAATTACTTTGTTGAGAACTG TTTCCTGGCTCTTGCTTAACCTTTGGCTGGTCTTGTTTATTATCAGCACCCCCAGATACCAGTT CAGGCCTAGATGGCTGCTCATTTGAATGATGCAAATGTTTCTGTTCCTGTTGTTGGTTCTCCTG GTTTCCAATTTCATTCTTTACTGAACCCTGCCACTGTTCATGATTGTGGGTGAACATTGAATTG CTCTCCTGAGGCACAAGAC
Genomic sequence	CTGCATGTTTGGTTCTGCTTGAGTGCCATGAGATCGATGAGGCTGACTTGAGTTTGTTGTGTTG AAAGATTTAGAAGTACCTGATGTTGATGGTTGGTTTTCAGGAACACCAACACCCTTACATCCAA AGGCTGTGTTAACTTGATTTACATGCATGGAGGCGCAAAAAAAAAAAAACACTTACGTAGATTC AGAGCATTAGATTTCAGTTACCTTATTTGTGTGTTCTGTTGGAGGGAAAGATTTAGTTTTCTGC TCTTTGTTTACTTGTTGCCATGGAGATATATTAGTTTGCAACGTTGGTCGTGCTGCCATGCTCC CAGTCACTGAGGTAACAGCTCCCTGGACTAATTGTCCTCTTTGACTGGAATCTGCCATTTGTGG TCTAAGTGGTACAATTGGACCTCCAACTGGTCGTGGCAATGGACGAGCATGAATATTATTTGAC CCAAGCACAGGTAAAGATGTTTGTGGATGCTGTGTTGCTTGCCCTGGGGCTGATTGTATATTGT GTGGATGGCTGAGCATATGCCCCCCTTTCACATCTGACATGTTACTAGATTCATTAACCTTTTG CAAATTGCTTTCTGAAGATGGATAGCCCATGTTACTTTGCATTTGGCCTGACAAAGAAGGTCGG AAAAAAGGTGGTCTTGGGCTGTCACTAGCTTGGTTTGCAGGAATGGAATGAGCTGACGGATATG ATTTGTGCTCAACTCCTGACGTAGAACCACTGGGAACATTCTGCTGATTGGAAACTTGACTTAA CAAAGAATAGTTGCTTGGATTTGTCTGTGGATTCCGTTGCCCATGAGCAGCCTGCAGCCAAACA AGACCAGAATAACTCCCAAGAAAAACAGATTGTGATGGTAAGAACAACAATAGCAGTACAGAAA GTGGTGATAGATAGATTGACCTAACTTAAAGAATAGATAGATTGACCTAACTTACGCACTAACT GCACAATGTAAAGTGGCAGTCAGTTACCTGCAATGGGGGAGAGGTCTCAAATGAACCCTAATAA ATTGAAACTTTAGTTACCTGAGCTTGATATTGTGCAGCAGCTTGTTTGAGCAACTTATCGCCAA CAATAGTCCTTACAACTTTGAGAAAGTGTTCCTTGCTAACTTCATTTTTCTATCGAAAATAAAG GATATCTTTATGCGATAAGTATAGTTGAGTAATCAGTTATGCAATAATATTCTATTTGTTTTTT TTTTAATTCAGCATAGTTCAGGAACCAACCCGCAACTTTGTAAAAATGGACTGAACTTGCATAT CCTTGTCTTTGTCAAGGTGCCGTCTCAAAATTGGTATTAACATATGAAATGTAACAACAGGAGG TTTCCCCACCGTAGGAGCACTATTAGTTTGATTTGTGCTTGGTGTTTGTTGACTCCTCATCTGT TGCAAAGGCTGCTTCTGACCAGAATTACTTTGTTGAGAACTGTTTCCTGGCTCTTGCTTAACCT TTGGCTGGTCTTGTTTATTATCAGCACCCCCAGATACCAGTTCAGGCCTAGATGGCTGCTCATT TGAATGATGCAAATGTTTCTGTTCCTGTTGTTGGTTCTCCTGGTTTCCAATTTCATTCTTTACT GAACCCTGCCACTGTTCATGATTGTGGGTGAACATTGAATTGCTCTCCTGAGGCACAAGAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.224061168

Conservation Information
Conserved circRNAs	NA
PMCS	0.224061168

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							18642761-18644348(-)
18644367-18644328(-)
						
						Potential amino acid sequence
						
							MALKQNQTCRSCASGEQFNVHPQS*(-)
MFTHNHEQWQGSVKNEIGNQENQQQEQKHLHHSNEQPSRPELVSGGADNKQDQPKVKQEPGNSS
QQSNSGQKQPLQQMRSQQTPSTNQTNSAPTVGKPPVVTFHMLIPILRRHLDKDKDMQVQSIFTK
LRKNEVSKEHFLKVVRTIVGDKLLKQAAAQYQAQAAHGQRNPQTNPSNYSLLSQVSNQQNVPSG
STSGVEHKSYPSAHSIPANQASDSPRPPFFRPSLSGQMQSNMGYPSSESNLQKVNESSNMSDVK
GGHMLSHPHNIQSAPGQATQHPQTSLPVLGSNNIHARPLPRPVGGPIVPLRPQMADSSQRGQLV
QGAVTSVTGSMAARPTLQTNISPWQQVNKEQKTKSFPPTEHTNKGVGVPENQPSTSGTSKSFNT
TNSSQPHRSHGTQAEPNMQVLCLRRAIQCSPTIMNSGRVQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	18642761-18644348(-) 18644367-18644328(-)
Potential amino acid sequence	MALKQNQTCRSCASGEQFNVHPQS(-) MFTHNHEQWQGSVKNEIGNQENQQQEQKHLHHSNEQPSRPELVSGGADNKQDQPKVKQEPGNSS QQSNSGQKQPLQQMRSQQTPSTNQTNSAPTVGKPPVVTFHMLIPILRRHLDKDKDMQVQSIFTK LRKNEVSKEHFLKVVRTIVGDKLLKQAAAQYQAQAAHGQRNPQTNPSNYSLLSQVSNQQNVPSG STSGVEHKSYPSAHSIPANQASDSPRPPFFRPSLSGQMQSNMGYPSSESNLQKVNESSNMSDVK GGHMLSHPHNIQSAPGQATQHPQTSLPVLGSNNIHARPLPRPVGGPIVPLRPQMADSSQRGQLV QGAVTSVTGSMAARPTLQTNISPWQQVNKEQKTKSFPPTEHTNKGVGVPENQPSTSGTSKSFNT TNSSQPHRSHGTQAEPNMQVLCLRRAIQCSPTIMNSGRVQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0441000_circ_g.4

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