Plant Circular RNA Database

Detail information of Os01g0125800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0125800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_000189
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 1415534-1417768  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os01g0125800						
					
						Parent gene annotation
						
							Actin-interacting, WD40-repeat protein, Actin turnover (Os01t012
5800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0125800_circ_g.3 Os01g0125800_circ_g.4 						
					
						Support reads
						1
					
						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  
						
							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
						Os01t0125850-00:3
Os01t0125800-01:3
Os01t0125850-00:3

General Information
CircRNA Name	Os01g0125800_circ_g.2
ID in PlantcircBase	osa_circ_000189
Alias	NA
Organism	Oryza sativa
Position	chr1: 1415534-1417768 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os01g0125800
Parent gene annotation	Actin-interacting, WD40-repeat protein, Actin turnover (Os01t012 5800-01)
Parent gene strand	+
Alternative splicing	Os01g0125800_circ_g.3 Os01g0125800_circ_g.4
Support reads	1
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	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	Os01t0125850-00:3 Os01t0125800-01:3 Os01t0125850-00:3

			
						 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  
						
							GGGTGCTATTACTTGCATACATTATTCGCCCGATGTTTCCATGTTTGCTTCTGCTGATGCCAAC
AGGGAAGCCGTTGTGTGGGATCGGGCAACGAGAGAGggatcactcaaactttgttaactgtatc
cgatatgctcctgatgggagtaagtttatcagcgtgagttcagataagaagggtttgatatatg
atggcaaa

									
								

					

						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: 1021
Transcript exons: 1415534-1415720,1416221-1416646,1417361-1417768
GGATCACTCAAACTTTGTTAACTGTATCCGATATGCTCCTGATGGGAGTAAGTTTATCAGCGTG
AGTTCAGATAAGAAGGGTTTGATATATGATGGCAAAACTGGAGACAAGATTGGAGAACTTTCCA
GCGAAGGCAGTCACACAGGGAGTATATATGCTGTTAGCTGGAGTCCTGACAGCAAACAAGTTCT
GACAGTTTCTGCTGATAAAACTGCCAAAGTCTGGGACATACTAGAAGACGCTAGTGGGAAATTG
AACAGAACTTTGGCTTGTCCTGGTACAGGTGGAGTAGATGACATGCTTGTGGGTTGCCTCTGGC
AGAATGATTATCTTGTGACAGTCTCTCTTGGTGGGACATTTAATGTGTTCTCTGCAAGTAATCC
AGACAAAGAGCCAGTAACCTTTGCAGGACATTTGAAGACTGTTAGTTCTTTGGCCTTTTTCCCA
CAAAGTAACCCCAAAACTATACTGTCCACAAGTTACGATGGCGTTATCATGAGATGGATAAAGG
GTGTTGGATATGGTGGCAGATTGATGCGAAAGAACAACACCCAGATTAAATGCTTTACTGTAGC
AGAAGAGGAACTCGTCACCTCTGGATATGATAACAAGGTTTTCAGAATTCCTCTTAATGGAGAT
CAGTGTGGAGATGCTGAATCAGTTGATGTAGGAGGTCAGCCAAATGCTTTGAACCTTGCAATTC
AAAAACCTGAATTTGCACTGGTCACAACAGATTCTGGGATAGTATTGCTGCACAAGTCAACGGT
CATTTCTACAACCAAAGTTAATTATACTATCACTTCATCTGCTGTTTCTCCTGATGGCACTGAA
GCCATCGTTGGTGCACAAGATGGGAAACTGCGTATCTATTCCATCAATGGGGATACAGTTACAG
AAGAAGCATTAATTGAGAAGCACCGGGGTGCTATTACTTGCATACATTATTCGCCCGATGTTTC
CATGTTTGCTTCTGCTGATGCCAACAGGGAAGCCGTTGTGTGGGATCGGGCAACGAGAGAG
						
					

						Genomic sequence
						
							GGATCACTCAAACTTTGTTAACTGTATCCGATATGCTCCTGATGGGAGTAAGTTTATCAGCGTG
AGTTCAGATAAGAAGGGTTTGATATATGATGGCAAAACTGGAGACAAGATTGGAGAACTTTCCA
GCGAAGGCAGTCACACAGGGAGTATATATGCTGTTAGCTGGAGTCCTGACAGCAAACAAGTAAT
TTCACATTAGTTATTCCATATTGTTAATTATTGAACTATCAATTCTGAAAGTCTTGAATTTCTG
GTATATTGAAATTGATCTTGGTCAAGGACTCTAGGTATGAAGTTCCTTCAGTAGGCGGCAGTAA
AGAACAGAAGTGCAGATTCAGAAAATGTACTTCATAGAATATAACTTTGTTAAATGTTAATTAT
AGATAATGTACCTATATGATTGTTGGATTGTCTGCAAAGTATAAGCTTTCTGCCTAGATCTGAG
AATGATCTACCTGTCAGTTGCATGACTTATTTATCTAGGATGTGCATTTTTTCTAATAGAAATT
GGAATTCAATTTTAGTCTGTGCATACTGCATACTTTAGCTATCATGACACATCAGCCTTTTATG
GTCTTATTGATGTATATTTTCTGTTTACCTTCTTGTTCCAAGTAACTTCATATGTTTTGCATTC
TGTAATTCATTTCTAACTGTAGTTTCTTCATTCGCCCATGGCTCTAGGTTCTGACAGTTTCTGC
TGATAAAACTGCCAAAGTCTGGGACATACTAGAAGACGCTAGTGGGAAATTGAACAGAACTTTG
GCTTGTCCTGGTACAGGTGGAGTAGATGACATGCTTGTGGGTTGCCTCTGGCAGAATGATTATC
TTGTGACAGTCTCTCTTGGTGGGACATTTAATGTGTTCTCTGCAAGTAATCCAGACAAAGAGCC
AGTAACCTTTGCAGGACATTTGAAGACTGTTAGTTCTTTGGCCTTTTTCCCACAAAGTAACCCC
AAAACTATACTGTCCACAAGTTACGATGGCGTTATCATGAGATGGATAAAGGGTGTTGGATATG
GTGGCAGATTGATGCGAAAGAACAACACCCAGATTAAATGCTTTACTGTAGCAGAAGAGGAACT
CGTCACCTCTGGATATGATAACAAGGTGAGATAGACAATGATTAGTATAAATACCCAGTGTTCC
TCAAAACGTCTGTTAGAGTAATAGAATATGTATTTTTTTTATTCTTTGGAACCTTTTTCTTCAT
GGTATATAAAGGTTACAATGTTGTGATCATTGTTTGTGAATGCTTAAATCATAGGTTTATTAAA
GAAACACTTCTTTGTATTTTAGTACTTTTTTCTTAAACTTCTTACCACTATGATAGGTGGCTAA
TTGTGTGACCATGTGTGCATAGTCAACTTGTTATGGGAAATTGGCATGGTTGTTATTGTCGGTC
CTGTACTAATCTATACAAATCTCAATATTGAATATTCACAGTGTCTATCCTTACAATTTTAACT
TAAATAATTTGGAAATTGCTAGGTGGGAAATGTGAGTAGTTTGTATGAGATCTGTATAACTGTA
TTTCTATAATGCACCAAAACAGTAACAGCTTAAAAAGTCTGCAGTCTCCAATTTGGATCAAACT
TCAGGAACACTTTCATACAGATGCATATACTTGCCATGATACAATGTGATGTACCTCCCACAGT
GCACAGAAATTGATTCTCGAGTCCCAAGATGACCAAAATATAGTGTTATTTTATTAATGCCAAC
ATCAACTTCTGAGTTTGAAATTTTAAGTGTATTTCTCTATTCTTGATTAAACAATGGAGTTTAG
TGATGAGCAACTTATTATTTTCTTTTTGAAAGCAGGTTTTCAGAATTCCTCTTAATGGAGATCA
GTGTGGAGATGCTGAATCAGTTGATGTAGGAGGTCAGCCAAATGCTTTGAACCTTGCAATTCAA
AAACCTGAATTTGCACTGGTCACAACAGATTCTGGGATAGTATTGCTGCACAAGTCAACGGTCA
TTTCTACAACCAAAGTTAATTATACTATCACTTCATCTGCTGTTTCTCCTGATGGCACTGAAGC
CATCGTTGGTGCACAAGATGGGAAACTGCGTATCTATTCCATCAATGGGGATACAGTTACAGAA
GAAGCATTAATTGAGAAGCACCGGGGTGCTATTACTTGCATACATTATTCGCCCGATGTTTCCA
TGTTTGCTTCTGCTGATGCCAACAGGGAAGCCGTTGTGTGGGATCGGGCAACGAGAGAG
						
					

			
		

Sequences
Splice junction sequence	GGGTGCTATTACTTGCATACATTATTCGCCCGATGTTTCCATGTTTGCTTCTGCTGATGCCAAC AGGGAAGCCGTTGTGTGGGATCGGGCAACGAGAGAGggatcactcaaactttgttaactgtatc cgatatgctcctgatgggagtaagtttatcagcgtgagttcagataagaagggtttgatatatg atggcaaa
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: 1021 Transcript exons: 1415534-1415720,1416221-1416646,1417361-1417768 GGATCACTCAAACTTTGTTAACTGTATCCGATATGCTCCTGATGGGAGTAAGTTTATCAGCGTG AGTTCAGATAAGAAGGGTTTGATATATGATGGCAAAACTGGAGACAAGATTGGAGAACTTTCCA GCGAAGGCAGTCACACAGGGAGTATATATGCTGTTAGCTGGAGTCCTGACAGCAAACAAGTTCT GACAGTTTCTGCTGATAAAACTGCCAAAGTCTGGGACATACTAGAAGACGCTAGTGGGAAATTG AACAGAACTTTGGCTTGTCCTGGTACAGGTGGAGTAGATGACATGCTTGTGGGTTGCCTCTGGC AGAATGATTATCTTGTGACAGTCTCTCTTGGTGGGACATTTAATGTGTTCTCTGCAAGTAATCC AGACAAAGAGCCAGTAACCTTTGCAGGACATTTGAAGACTGTTAGTTCTTTGGCCTTTTTCCCA CAAAGTAACCCCAAAACTATACTGTCCACAAGTTACGATGGCGTTATCATGAGATGGATAAAGG GTGTTGGATATGGTGGCAGATTGATGCGAAAGAACAACACCCAGATTAAATGCTTTACTGTAGC AGAAGAGGAACTCGTCACCTCTGGATATGATAACAAGGTTTTCAGAATTCCTCTTAATGGAGAT CAGTGTGGAGATGCTGAATCAGTTGATGTAGGAGGTCAGCCAAATGCTTTGAACCTTGCAATTC AAAAACCTGAATTTGCACTGGTCACAACAGATTCTGGGATAGTATTGCTGCACAAGTCAACGGT CATTTCTACAACCAAAGTTAATTATACTATCACTTCATCTGCTGTTTCTCCTGATGGCACTGAA GCCATCGTTGGTGCACAAGATGGGAAACTGCGTATCTATTCCATCAATGGGGATACAGTTACAG AAGAAGCATTAATTGAGAAGCACCGGGGTGCTATTACTTGCATACATTATTCGCCCGATGTTTC CATGTTTGCTTCTGCTGATGCCAACAGGGAAGCCGTTGTGTGGGATCGGGCAACGAGAGAG
Genomic sequence	GGATCACTCAAACTTTGTTAACTGTATCCGATATGCTCCTGATGGGAGTAAGTTTATCAGCGTG AGTTCAGATAAGAAGGGTTTGATATATGATGGCAAAACTGGAGACAAGATTGGAGAACTTTCCA GCGAAGGCAGTCACACAGGGAGTATATATGCTGTTAGCTGGAGTCCTGACAGCAAACAAGTAAT TTCACATTAGTTATTCCATATTGTTAATTATTGAACTATCAATTCTGAAAGTCTTGAATTTCTG GTATATTGAAATTGATCTTGGTCAAGGACTCTAGGTATGAAGTTCCTTCAGTAGGCGGCAGTAA AGAACAGAAGTGCAGATTCAGAAAATGTACTTCATAGAATATAACTTTGTTAAATGTTAATTAT AGATAATGTACCTATATGATTGTTGGATTGTCTGCAAAGTATAAGCTTTCTGCCTAGATCTGAG AATGATCTACCTGTCAGTTGCATGACTTATTTATCTAGGATGTGCATTTTTTCTAATAGAAATT GGAATTCAATTTTAGTCTGTGCATACTGCATACTTTAGCTATCATGACACATCAGCCTTTTATG GTCTTATTGATGTATATTTTCTGTTTACCTTCTTGTTCCAAGTAACTTCATATGTTTTGCATTC TGTAATTCATTTCTAACTGTAGTTTCTTCATTCGCCCATGGCTCTAGGTTCTGACAGTTTCTGC TGATAAAACTGCCAAAGTCTGGGACATACTAGAAGACGCTAGTGGGAAATTGAACAGAACTTTG GCTTGTCCTGGTACAGGTGGAGTAGATGACATGCTTGTGGGTTGCCTCTGGCAGAATGATTATC TTGTGACAGTCTCTCTTGGTGGGACATTTAATGTGTTCTCTGCAAGTAATCCAGACAAAGAGCC AGTAACCTTTGCAGGACATTTGAAGACTGTTAGTTCTTTGGCCTTTTTCCCACAAAGTAACCCC AAAACTATACTGTCCACAAGTTACGATGGCGTTATCATGAGATGGATAAAGGGTGTTGGATATG GTGGCAGATTGATGCGAAAGAACAACACCCAGATTAAATGCTTTACTGTAGCAGAAGAGGAACT CGTCACCTCTGGATATGATAACAAGGTGAGATAGACAATGATTAGTATAAATACCCAGTGTTCC TCAAAACGTCTGTTAGAGTAATAGAATATGTATTTTTTTTATTCTTTGGAACCTTTTTCTTCAT GGTATATAAAGGTTACAATGTTGTGATCATTGTTTGTGAATGCTTAAATCATAGGTTTATTAAA GAAACACTTCTTTGTATTTTAGTACTTTTTTCTTAAACTTCTTACCACTATGATAGGTGGCTAA TTGTGTGACCATGTGTGCATAGTCAACTTGTTATGGGAAATTGGCATGGTTGTTATTGTCGGTC CTGTACTAATCTATACAAATCTCAATATTGAATATTCACAGTGTCTATCCTTACAATTTTAACT TAAATAATTTGGAAATTGCTAGGTGGGAAATGTGAGTAGTTTGTATGAGATCTGTATAACTGTA TTTCTATAATGCACCAAAACAGTAACAGCTTAAAAAGTCTGCAGTCTCCAATTTGGATCAAACT TCAGGAACACTTTCATACAGATGCATATACTTGCCATGATACAATGTGATGTACCTCCCACAGT GCACAGAAATTGATTCTCGAGTCCCAAGATGACCAAAATATAGTGTTATTTTATTAATGCCAAC ATCAACTTCTGAGTTTGAAATTTTAAGTGTATTTCTCTATTCTTGATTAAACAATGGAGTTTAG TGATGAGCAACTTATTATTTTCTTTTTGAAAGCAGGTTTTCAGAATTCCTCTTAATGGAGATCA GTGTGGAGATGCTGAATCAGTTGATGTAGGAGGTCAGCCAAATGCTTTGAACCTTGCAATTCAA AAACCTGAATTTGCACTGGTCACAACAGATTCTGGGATAGTATTGCTGCACAAGTCAACGGTCA TTTCTACAACCAAAGTTAATTATACTATCACTTCATCTGCTGTTTCTCCTGATGGCACTGAAGC CATCGTTGGTGCACAAGATGGGAAACTGCGTATCTATTCCATCAATGGGGATACAGTTACAGAA GAAGCATTAATTGAGAAGCACCGGGGTGCTATTACTTGCATACATTATTCGCCCGATGTTTCCA TGTTTGCTTCTGCTGATGCCAACAGGGAAGCCGTTGTGTGGGATCGGGCAACGAGAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.149766365

Conservation Information
Conserved circRNAs	NA
PMCS	0.149766365

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1416333-1415551(+)
1417702-1415551(+)
						
						Potential amino acid sequence
						
							MLVGCLWQNDYLVTVSLGGTFNVFSASNPDKEPVTFAGHLKTVSSLAFFPQSNPKTILSTSYDG
VIMRWIKGVGYGGRLMRKNNTQIKCFTVAEEELVTSGYDNKVFRIPLNGDQCGDAESVDVGGQP
NALNLAIQKPEFALVTTDSGIVLLHKSTVISTTKVNYTITSSAVSPDGTEAIVGAQDGKLRIYS
INGDTVTEEALIEKHRGAITCIHYSPDVSMFASADANREAVVWDRATREGSLKLC*(+)
MFPCLLLLMPTGKPLCGIGQRERDHSNFVNCIRYAPDGSKFISVSSDKKGLIYDGKTGDKIGEL
SSEGSHTGSIYAVSWSPDSKQVLTVSADKTAKVWDILEDASGKLNRTLACPGTGGVDDMLVGCL
WQNDYLVTVSLGGTFNVFSASNPDKEPVTFAGHLKTVSSLAFFPQSNPKTILSTSYDGVIMRWI
KGVGYGGRLMRKNNTQIKCFTVAEEELVTSGYDNKVFRIPLNGDQCGDAESVDVGGQPNALNLA
IQKPEFALVTTDSGIVLLHKSTVISTTKVNYTITSSAVSPDGTEAIVGAQDGKLRIYSINGDTV
TEEALIEKHRGAITCIHYSPDVSMFASADANREAVVWDRATREGSLKLC*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1416333-1415551(+) 1417702-1415551(+)
Potential amino acid sequence	MLVGCLWQNDYLVTVSLGGTFNVFSASNPDKEPVTFAGHLKTVSSLAFFPQSNPKTILSTSYDG VIMRWIKGVGYGGRLMRKNNTQIKCFTVAEEELVTSGYDNKVFRIPLNGDQCGDAESVDVGGQP NALNLAIQKPEFALVTTDSGIVLLHKSTVISTTKVNYTITSSAVSPDGTEAIVGAQDGKLRIYS INGDTVTEEALIEKHRGAITCIHYSPDVSMFASADANREAVVWDRATREGSLKLC(+) MFPCLLLLMPTGKPLCGIGQRERDHSNFVNCIRYAPDGSKFISVSSDKKGLIYDGKTGDKIGEL SSEGSHTGSIYAVSWSPDSKQVLTVSADKTAKVWDILEDASGKLNRTLACPGTGGVDDMLVGCL WQNDYLVTVSLGGTFNVFSASNPDKEPVTFAGHLKTVSSLAFFPQSNPKTILSTSYDGVIMRWI KGVGYGGRLMRKNNTQIKCFTVAEEELVTSGYDNKVFRIPLNGDQCGDAESVDVGGQPNALNLA IQKPEFALVTTDSGIVLLHKSTVISTTKVNYTITSSAVSPDGTEAIVGAQDGKLRIYSINGDTV TEEALIEKHRGAITCIHYSPDVSMFASADANREAVVWDRATREGSLKLC(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0125800_circ_g.2

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