Plant Circular RNA Database

Detail information of Os01g0175700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0175700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_000498
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 3895929-3897068  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							Os01g0175700						
					
						Parent gene annotation
						
							Boron (B) transporter (Os01t0175700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0175633_circ_ag.1 Os01g0175633_circ_ag.2 Os01g0175633_circ_ag.3 Os01g0175633_circ_ag.4 Os01g0175633_circ_ag.5 Os01g0175633_circ_ag.6 Os01g0175633_circ_ag.7 Os01g0175700_circ_g.1 Os01g0175733_circ_igg.1 						
					
						Support reads
						10
					
						Tissues
						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  
						
							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
						Os01t0175733-00:4
Os01t0175700-01:4
Os01t0175733-00:4

General Information
CircRNA Name	Os01g0175700_circ_g.2
ID in PlantcircBase	osa_circ_000498
Alias	NA
Organism	Oryza sativa
Position	chr1: 3895929-3897068 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	Os01g0175700
Parent gene annotation	Boron (B) transporter (Os01t0175700-01)
Parent gene strand	-
Alternative splicing	Os01g0175633_circ_ag.1 Os01g0175633_circ_ag.2 Os01g0175633_circ_ag.3 Os01g0175633_circ_ag.4 Os01g0175633_circ_ag.5 Os01g0175633_circ_ag.6 Os01g0175633_circ_ag.7 Os01g0175700_circ_g.1 Os01g0175733_circ_igg.1
Support reads	10
Tissues	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	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	Os01t0175733-00:4 Os01t0175700-01:4 Os01t0175733-00:4

			
						 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  
						
							ACTCCTGAAGGAACATCCTTTGGTAACGTGTACGAGAATGCTGTCCAAACAATCACCATAAGTG
GGACACCATAATCAGCAATGAAGCCTCTGAGCCACCatttttttcgcagtccatctcgatgaaa
accccttgaatcttgccatagatttccaaactgctagcacgattcatcaggccttcgttggcag
tttgaacc

									
								

					

						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: 554
Transcript exons: 3895929-3896045,3896135-3896230,3896604-3896777,3896902-
3897068
ATTTTTTTCGCAGTCCATCTCGATGAAAACCCCTTGAATCTTGCCATAGATTTCCAAACTGCTA
GCACGATTCATCAGGCCTTCGTTGGCAGTTTGAACCATCTTTTTGCGTAGCAGCTGCCCCTTAA
GGACTGCAAGGCTTCTTGTATGCATCGGAGACTGAGGAAGTACTCCATTAGATGGAGGGATGCC
GATCAAACCACAAAGCAGGACCATGAATCCGAGGACCAAAATGTCATAATGGTAGGCAGAGGGT
TTCTTCAAGTTAAACTCTTTTTGTTGCGCCAATTGTGAAGCCACGCTATGATCAAAGAAGTAAA
GTCCTGCAACCATCAAAGCCGGCAGAATGGCAGCAAATATGTATGCTGGAGGAACTGAAAACAG
ATCTTTTGCTACCGTCCAATGTTGCAGTGAACTCGACTCCCAGGGAAGTGGACTGAACAGCCTC
CTAGGAACTCCTGAAGGAACATCCTTTGGTAACGTGTACGAGAATGCTGTCCAAACAATCACCA
TAAGTGGGACACCATAATCAGCAATGAAGCCTCTGAGCCACC
						
					

						Genomic sequence
						
							ATTTTTTTCGCAGTCCATCTCGATGAAAACCCCTTGAATCTTGCCATAGATTTCCAAACTGCTA
GCACGATTCATCAGGCCTTCGTTGGCAGTTTGAACCATCTTTTTGCGTAGCAGCTAAGCAAACA
AAGGAACAAGACGGATGAGCTGATGAGCAAATATGGCTACCGTAGCAAACAAAACACTTCGGTC
TAAAGTTCACCAACCTGCCCCTTAAGGACTGCAAGGCTTCTTGTATGCATCGGAGACTGAGGAA
GTACTCCATTAGATGGAGGGATGCCGATCAAACCACAAAGCAGGACCTGTATCATTTATGTACT
ACTATGAGAAAAGGAGCATGCCACAATTTTGGACTGATAATGAAGTCAGAACACAGGATAGATG
CAGGGTGTACATTAGACCAGAAAGCAGAATCTGTATCCTATCTGCCATTGCCTTGTAGATTGCA
GTAGTGCCATAATCACGCAAAAAAAATTCAGATATTACGGATGTTGGAATTTAATTTTCTAAGA
AATGCAGGTGTATTTTCAATCATACCCATTCAATTGGTGTAACAAATACAAACTCTACTTTAAA
ATATATAAGAACATTTCTTATTCAAAAGACTATACTAAGAGAAACTTAAGAAGGGTCGCCATAA
GCAGATAAATTGTATCATAAAAACATGCCACACACCATGAATCCGAGGACCAAAATGTCATAAT
GGTAGGCAGAGGGTTTCTTCAAGTTAAACTCTTTTTGTTGCGCCAATTGTGAAGCCACGCTATG
ATCAAAGAAGTAAAGTCCTGCAACCATCAAAGCCGGCAGAATGGCAGCAAATATGTATGCTGGA
GGAACTGAAAACAGATCCTGAAAATAAAAAAAGAGAAGATATTATTAATGATGCCATGCAAAAT
AAGCTGTGCGAAACTTCTAAAATTGAAGACCATAAATATTCACATCTCCAGTATCACAAGCAAG
TTTGACTAATTACTTTTGCTACCGTCCAATGTTGCAGTGAACTCGACTCCCAGGGAAGTGGACT
GAACAGCCTCCTAGGAACTCCTGAAGGAACATCCTTTGGTAACGTGTACGAGAATGCTGTCCAA
ACAATCACCATAAGTGGGACACCATAATCAGCAATGAAGCCTCTGAGCCACC
						
					

			
		

Sequences
Splice junction sequence	ACTCCTGAAGGAACATCCTTTGGTAACGTGTACGAGAATGCTGTCCAAACAATCACCATAAGTG GGACACCATAATCAGCAATGAAGCCTCTGAGCCACCatttttttcgcagtccatctcgatgaaa accccttgaatcttgccatagatttccaaactgctagcacgattcatcaggccttcgttggcag tttgaacc
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: 554 Transcript exons: 3895929-3896045,3896135-3896230,3896604-3896777,3896902- 3897068 ATTTTTTTCGCAGTCCATCTCGATGAAAACCCCTTGAATCTTGCCATAGATTTCCAAACTGCTA GCACGATTCATCAGGCCTTCGTTGGCAGTTTGAACCATCTTTTTGCGTAGCAGCTGCCCCTTAA GGACTGCAAGGCTTCTTGTATGCATCGGAGACTGAGGAAGTACTCCATTAGATGGAGGGATGCC GATCAAACCACAAAGCAGGACCATGAATCCGAGGACCAAAATGTCATAATGGTAGGCAGAGGGT TTCTTCAAGTTAAACTCTTTTTGTTGCGCCAATTGTGAAGCCACGCTATGATCAAAGAAGTAAA GTCCTGCAACCATCAAAGCCGGCAGAATGGCAGCAAATATGTATGCTGGAGGAACTGAAAACAG ATCTTTTGCTACCGTCCAATGTTGCAGTGAACTCGACTCCCAGGGAAGTGGACTGAACAGCCTC CTAGGAACTCCTGAAGGAACATCCTTTGGTAACGTGTACGAGAATGCTGTCCAAACAATCACCA TAAGTGGGACACCATAATCAGCAATGAAGCCTCTGAGCCACC
Genomic sequence	ATTTTTTTCGCAGTCCATCTCGATGAAAACCCCTTGAATCTTGCCATAGATTTCCAAACTGCTA GCACGATTCATCAGGCCTTCGTTGGCAGTTTGAACCATCTTTTTGCGTAGCAGCTAAGCAAACA AAGGAACAAGACGGATGAGCTGATGAGCAAATATGGCTACCGTAGCAAACAAAACACTTCGGTC TAAAGTTCACCAACCTGCCCCTTAAGGACTGCAAGGCTTCTTGTATGCATCGGAGACTGAGGAA GTACTCCATTAGATGGAGGGATGCCGATCAAACCACAAAGCAGGACCTGTATCATTTATGTACT ACTATGAGAAAAGGAGCATGCCACAATTTTGGACTGATAATGAAGTCAGAACACAGGATAGATG CAGGGTGTACATTAGACCAGAAAGCAGAATCTGTATCCTATCTGCCATTGCCTTGTAGATTGCA GTAGTGCCATAATCACGCAAAAAAAATTCAGATATTACGGATGTTGGAATTTAATTTTCTAAGA AATGCAGGTGTATTTTCAATCATACCCATTCAATTGGTGTAACAAATACAAACTCTACTTTAAA ATATATAAGAACATTTCTTATTCAAAAGACTATACTAAGAGAAACTTAAGAAGGGTCGCCATAA GCAGATAAATTGTATCATAAAAACATGCCACACACCATGAATCCGAGGACCAAAATGTCATAAT GGTAGGCAGAGGGTTTCTTCAAGTTAAACTCTTTTTGTTGCGCCAATTGTGAAGCCACGCTATG ATCAAAGAAGTAAAGTCCTGCAACCATCAAAGCCGGCAGAATGGCAGCAAATATGTATGCTGGA GGAACTGAAAACAGATCCTGAAAATAAAAAAAGAGAAGATATTATTAATGATGCCATGCAAAAT AAGCTGTGCGAAACTTCTAAAATTGAAGACCATAAATATTCACATCTCCAGTATCACAAGCAAG TTTGACTAATTACTTTTGCTACCGTCCAATGTTGCAGTGAACTCGACTCCCAGGGAAGTGGACT GAACAGCCTCCTAGGAACTCCTGAAGGAACATCCTTTGGTAACGTGTACGAGAATGCTGTCCAA ACAATCACCATAAGTGGGACACCATAATCAGCAATGAAGCCTCTGAGCCACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.164555694

Conservation Information
Conserved circRNAs	NA
PMCS	0.164555694

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3895977-3897046(-)
3897029-3897023(-)
						
						Potential amino acid sequence
						
							MARFKGFSSRWTAKKMVAQRLHC*(-)
MVIVWTAFSYTLPKDVPSGVPRRLFSPLPWESSSLQHWTVAKDLFSVPPAYIFAAILPALMVAG
LYFFDHSVASQLAQQKEFNLKKPSAYHYDILVLGFMVLLCGLIGIPPSNGVLPQSPMHTRSLAV
LKGQLLRKKMVQTANEGLMNRASSLEIYGKIQGVFIEMDCEKNGGSEASLLIMVSHLW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3895977-3897046(-) 3897029-3897023(-)
Potential amino acid sequence	MARFKGFSSRWTAKKMVAQRLHC(-) MVIVWTAFSYTLPKDVPSGVPRRLFSPLPWESSSLQHWTVAKDLFSVPPAYIFAAILPALMVAG LYFFDHSVASQLAQQKEFNLKKPSAYHYDILVLGFMVLLCGLIGIPPSNGVLPQSPMHTRSLAV LKGQLLRKKMVQTANEGLMNRASSLEIYGKIQGVFIEMDCEKNGGSEASLLIMVSHLW(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0175700_circ_g.2

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