Plant Circular RNA Database

Detail information of Os01g0872700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os01g0872700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_005028
					
						Alias
						Os01circ28961
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 37848042-37850428  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Os01g0872700						
					
						Parent gene annotation
						
							Zinc finger, CCHC-type domain containing protein. (Os01t0872700-
01);Similar to predicted protein. (Os01t0872700-02);Hypothetical
 conserved gene. (Os01t0872700-03)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0872700_circ_g.3 						
					
						Support reads
						2
					
						Tissues
						leaf
					
						Exon boundary  
						
							No-No							"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
						Os01t0872700-02:7
Os01t0872700-01:7

General Information
CircRNA Name	Os01g0872700_circ_g.2
ID in PlantcircBase	osa_circ_005028
Alias	Os01circ28961
Organism	Oryza sativa
Position	chr1: 37848042-37850428 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Os01g0872700
Parent gene annotation	Zinc finger, CCHC-type domain containing protein. (Os01t0872700- 01);Similar to predicted protein. (Os01t0872700-02);Hypothetical conserved gene. (Os01t0872700-03)
Parent gene strand	-
Alternative splicing	Os01g0872700_circ_g.3
Support reads	2
Tissues	leaf
Exon boundary	No-No "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	Os01t0872700-02:7 Os01t0872700-01:7

			
						 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  
						
							CACAAATTGCAACAAAGGAAAGAGACAATATTACCTGGTAAGGTTTCTTTGGAACAATAGCTTC
ACCTTTTTCATCAAACTCCCCAGCTTTTCTCTTAACctttccctccatcctggttctccaagtt
ttatctgagaagacaaacaatgttatgactaaattgaaaacatttaaacaaatagctaatagaa
agtaaatg

									
								

					

						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
						
							CTTTCCCTCCATCCTGGTTCTCCAAGTTTTATCTGAGAAGACAAACAATGTTATGACTAAATTG
AAAACATTTAAACAAATAGCTAATAGAAAGTAAATGAGTTAAAATAAAAGGAAAGTAAACACTT
TAATTAAACGTATAATAAGGTCCAGCACAGCAGTGGCATGACTTGTGTGTAAACACTAACCTTG
TCCTCCTCTGGATTTTCAGAATTAAAAACATCAGATTTCTCACGAAGTGCATCTTTAAGCATTG
TCTTCAAATCTTCCTTGTTTTCGCGTTCCTAAGAAAGATACAGGAACAAGTGTCAGATAAAATC
ACAAAAATGTTTCTTCAAAAACAAATATAAATTCTCCTGGAGCCAGATGAAATGAGCTACCTGT
GCTTCAAGGTCATTTTCAGCTTCAACAATAGCAGCCGCAATGCTTGAACCTGACGATGATACCC
GTGCAGCTTTCCGAGCACGACTATTTTTTCCCCCATTGTTTTTGTCAGATCCATTTTGTTCATA
TGGTGAAGGCACAGGTCCAGATGCAAGGCGAGACCCTTGGAAGCGTGCAACAGGTACAATAAGA
TCATCCCTGACATGGGGATCCAGGTCATCCCCTCGTTTTGCTTGGGCCTTTTCTCGTTTTATCC
TTTCAGCTTGACGCTACACAAGGATATGAACTTAACATCAATGACTTGTTGAATATTTGACCGC
CAGATATATAGAATAGTGTTGCAAACATTTATTTCTCAAGAGTTCATGTTGATCATATCAGAAG
GCTTTGCATAACTAAGGATAAATAATGATGGAACATGCCTAAGCCATACGGACGTGGTACGCTG
CATGCAGAAGTTTTCCATGGGTAACATTTAAATTCTAGGGGAAAGTATGGGGGAGAAAACCTTG
AACAAATAACTAGTTTAGAAGATACTTGAACAATCAACTGGTTTTTCTGATTTTACTAGCTAAA
TGGGAATCAAAAATGTCTCAATATTGTTCAAAACATAATGTGATTTCTACGGAGCATAGCATTT
ACTTCTTTTCAAGGATTGGCAGTGTTCACACATGCTAATTGTAGAATTAACTTCTTTAGAGGTA
TTGTAAAAAAAAAAACACTAACCTACATGTCAAGGATTATCTGGTCATTGTGAACCTTTCCATG
TTATATTGTGAATTTACAAGGCTAGCTAAGAAGAAAGCAGCATAGAGAAGATATACGGTGTAAT
ATTAAAACAATACACGGAGCAATTAGTAAGAAATGCAGTGTGTTGGACTATTGGTGGCAGGTGG
CAAATTCACAATCACTACCTCCAATTTGAAGGAAGTTTATAGACAACATGTCATAGAAGATATA
ACGCAGTACATCAGGCTGAAATTACCAGTATATCAAAATAAACACTCAATGAACTTTGCAAATA
AGGAAATTACATTGCCAAATACAAACAGAAATTTCAACTGATAGCTAATGGTGAACCCCTTGGC
GCATAGTGGCATGGAGTAAAAATAAAGATTAGGTGCCAGATGATAACATGATAACAAGGGAATT
GAAAAGGCTAAGGAGTAAAATAAAATAAAATCACCTGATGCAAACGAGCTCTTTTCTGAAATAT
TTTATCCTCGTAGGAGCCAACTGCTTGAATAAAGTGTTCAACTTTATTCAGATCCGGCTAATGT
AACAGATGAAAAACATGTTAATACTGAAATACCAACTTGGATCAGTTGGAATAAAATACTACTT
TCTGCAAACAAACACACACACACACACACACACACAAATGGGTAACTTCAATAGGAGTGGCTTT
TTAATTACCGTGCAAGCATCAGTTAGATAGCCACCCATGGAAGGAAATTCCTTCTTGTATACAG
CCATTAGCAAGTTAATAGCTCCCTGCAGAAAAGCCAAGTTAACATCATGCAATAACAAATCTAC
AAGAGAACTGTAAGCAGGAATAAAATAAATATCCAATTTACTAGTAAGTAGTAATCTGATAATT
TCATAGCTACTAGCTTCAAACGAAGATATCCAGTAAAACATTTAGCTTTACAACAGGTAACAAA
CCTCACGAATCTCTAATGTTGGCATATGTGGAAGAAAATCATTGCCAACAAAAAAACACATGAA
GATGAAATCATCAACGATGCGTTCAAAGTCAATCGGGAAAGGTGGATTCTGCATTCTGAACTCA
TATTCTAAGTACTCCCGGAGGGTCCATATATTCAAGAACTGCAATGTCACACAAGGAGCAATTA
AAATAAAACAAGGTCCTCAGCAAATTCATAAAGTGTACTTATTAGACCACAAATTGCAACAAAG
GAAAGAGACAATATTACCTGGTAAGGTTTCTTTGGAACAATAGCTTCACCTTTTTCATCAAACT
CCCCAGCTTTTCTCTTAAC
						
					

			
		

Sequences
Splice junction sequence	CACAAATTGCAACAAAGGAAAGAGACAATATTACCTGGTAAGGTTTCTTTGGAACAATAGCTTC ACCTTTTTCATCAAACTCCCCAGCTTTTCTCTTAACctttccctccatcctggttctccaagtt ttatctgagaagacaaacaatgttatgactaaattgaaaacatttaaacaaatagctaatagaa agtaaatg
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	CTTTCCCTCCATCCTGGTTCTCCAAGTTTTATCTGAGAAGACAAACAATGTTATGACTAAATTG AAAACATTTAAACAAATAGCTAATAGAAAGTAAATGAGTTAAAATAAAAGGAAAGTAAACACTT TAATTAAACGTATAATAAGGTCCAGCACAGCAGTGGCATGACTTGTGTGTAAACACTAACCTTG TCCTCCTCTGGATTTTCAGAATTAAAAACATCAGATTTCTCACGAAGTGCATCTTTAAGCATTG TCTTCAAATCTTCCTTGTTTTCGCGTTCCTAAGAAAGATACAGGAACAAGTGTCAGATAAAATC ACAAAAATGTTTCTTCAAAAACAAATATAAATTCTCCTGGAGCCAGATGAAATGAGCTACCTGT GCTTCAAGGTCATTTTCAGCTTCAACAATAGCAGCCGCAATGCTTGAACCTGACGATGATACCC GTGCAGCTTTCCGAGCACGACTATTTTTTCCCCCATTGTTTTTGTCAGATCCATTTTGTTCATA TGGTGAAGGCACAGGTCCAGATGCAAGGCGAGACCCTTGGAAGCGTGCAACAGGTACAATAAGA TCATCCCTGACATGGGGATCCAGGTCATCCCCTCGTTTTGCTTGGGCCTTTTCTCGTTTTATCC TTTCAGCTTGACGCTACACAAGGATATGAACTTAACATCAATGACTTGTTGAATATTTGACCGC CAGATATATAGAATAGTGTTGCAAACATTTATTTCTCAAGAGTTCATGTTGATCATATCAGAAG GCTTTGCATAACTAAGGATAAATAATGATGGAACATGCCTAAGCCATACGGACGTGGTACGCTG CATGCAGAAGTTTTCCATGGGTAACATTTAAATTCTAGGGGAAAGTATGGGGGAGAAAACCTTG AACAAATAACTAGTTTAGAAGATACTTGAACAATCAACTGGTTTTTCTGATTTTACTAGCTAAA TGGGAATCAAAAATGTCTCAATATTGTTCAAAACATAATGTGATTTCTACGGAGCATAGCATTT ACTTCTTTTCAAGGATTGGCAGTGTTCACACATGCTAATTGTAGAATTAACTTCTTTAGAGGTA TTGTAAAAAAAAAAACACTAACCTACATGTCAAGGATTATCTGGTCATTGTGAACCTTTCCATG TTATATTGTGAATTTACAAGGCTAGCTAAGAAGAAAGCAGCATAGAGAAGATATACGGTGTAAT ATTAAAACAATACACGGAGCAATTAGTAAGAAATGCAGTGTGTTGGACTATTGGTGGCAGGTGG CAAATTCACAATCACTACCTCCAATTTGAAGGAAGTTTATAGACAACATGTCATAGAAGATATA ACGCAGTACATCAGGCTGAAATTACCAGTATATCAAAATAAACACTCAATGAACTTTGCAAATA AGGAAATTACATTGCCAAATACAAACAGAAATTTCAACTGATAGCTAATGGTGAACCCCTTGGC GCATAGTGGCATGGAGTAAAAATAAAGATTAGGTGCCAGATGATAACATGATAACAAGGGAATT GAAAAGGCTAAGGAGTAAAATAAAATAAAATCACCTGATGCAAACGAGCTCTTTTCTGAAATAT TTTATCCTCGTAGGAGCCAACTGCTTGAATAAAGTGTTCAACTTTATTCAGATCCGGCTAATGT AACAGATGAAAAACATGTTAATACTGAAATACCAACTTGGATCAGTTGGAATAAAATACTACTT TCTGCAAACAAACACACACACACACACACACACACAAATGGGTAACTTCAATAGGAGTGGCTTT TTAATTACCGTGCAAGCATCAGTTAGATAGCCACCCATGGAAGGAAATTCCTTCTTGTATACAG CCATTAGCAAGTTAATAGCTCCCTGCAGAAAAGCCAAGTTAACATCATGCAATAACAAATCTAC AAGAGAACTGTAAGCAGGAATAAAATAAATATCCAATTTACTAGTAAGTAGTAATCTGATAATT TCATAGCTACTAGCTTCAAACGAAGATATCCAGTAAAACATTTAGCTTTACAACAGGTAACAAA CCTCACGAATCTCTAATGTTGGCATATGTGGAAGAAAATCATTGCCAACAAAAAAACACATGAA GATGAAATCATCAACGATGCGTTCAAAGTCAATCGGGAAAGGTGGATTCTGCATTCTGAACTCA TATTCTAAGTACTCCCGGAGGGTCCATATATTCAAGAACTGCAATGTCACACAAGGAGCAATTA AAATAAAACAAGGTCCTCAGCAAATTCATAAAGTGTACTTATTAGACCACAAATTGCAACAAAG GAAAGAGACAATATTACCTGGTAAGGTTTCTTTGGAACAATAGCTTCACCTTTTTCATCAAACT CCCCAGCTTTTCTCTTAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.143130478

Conservation Information
Conserved circRNAs	NA
PMCS	0.143130478

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015

circRNA

Detail information of Os01g0872700_circ_g.2

Address

Any questions?

Supported by