Plant Circular RNA Database

Detail information of Os06g0473200_circ_g.5

			
						 General Information
					
						CircRNA Name
						Os06g0473200_circ_g.5
					
						ID in PlantcircBase
						osa_circ_030837
					
						Alias
						Os_ciR5505
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr6: 15816398-15818053  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os06g0473200						
					
						Parent gene annotation
						
							Similar to NPK2. (Os06t0473200-01);Similar to Mitogen-activated 
protein kinase kinase 3. (Os06t0473200-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os06g0473200_circ_g.1 Os06g0473200_circ_g.2 Os06g0473200_circ_g.3 Os06g0473200_circ_g.4 Os06g0473200_circ_g.6 Os06g0473200_circ_g.7 						
					
						Support reads
						3
					
						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
						Os06t0473200-01:3
Os06t0473200-02:3

General Information
CircRNA Name	Os06g0473200_circ_g.5
ID in PlantcircBase	osa_circ_030837
Alias	Os_ciR5505
Organism	Oryza sativa
Position	chr6: 15816398-15818053 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os06g0473200
Parent gene annotation	Similar to NPK2. (Os06t0473200-01);Similar to Mitogen-activated protein kinase kinase 3. (Os06t0473200-02)
Parent gene strand	-
Alternative splicing	Os06g0473200_circ_g.1 Os06g0473200_circ_g.2 Os06g0473200_circ_g.3 Os06g0473200_circ_g.4 Os06g0473200_circ_g.6 Os06g0473200_circ_g.7
Support reads	3
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	Os06t0473200-01:3 Os06t0473200-02:3

			
						 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  
						
							AATCAGGCATGTAGAATGCACCCTGGAATTCAACTAAACCAATATAACAACATGCTTCACATAA
TGTTCTCATCTCATTCAGAATTTGTTGTCTCTTCTCctgcagcatgaggttggctgggccttca
ttcacattatatggaaatttaccagtagcacactccaatattgctagtccaagactccaaatat
cagcagca

									
								

					

						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
						
							CTGCAGCATGAGGTTGGCTGGGCCTTCATTCACATTATATGGAAATTTACCAGTAGCACACTCC
AATATTGCTAGTCCAAGACTCCAAATATCAGCAGCATAAGAGTAGTTCTCGTTACGAATTCTCT
CAGGTGACATATATGTGACTGTGCCTACAAAGGTAGCACACTGGAACATATTTATTTAGCAGAA
AATATATCGTTGATTCAATCTAAATGATTTGACGTCATTGAAGTACTATTCAAGAACAACTAGC
ATACAAGAAACATCAAAGATCATGCACACATGACACATCATATCCTGTCTGCAGAATGCCAAGT
TTCATGATTCACTTGCTTATGTATATACTCCTTCCGTTCACAAATAGGTACTCCCTCCGTCCCA
AAATAGAAGAACCTATGATCGGATGGGACATTTCCTACTACTACGAATCTGGACAGGCAGTCTG
TCTAGATTCATAGTATTAGAAAATGTCCCATCCGTTTAGGTTCTCATATTTTGGGACGGAGGGA
GTATCATTTTAAGATTCACGCAGTCAAACCTTGAAAATATTAAATCAACAATATATGCAAAAGA
ATTAGGATTGGATATTAAAAATGATACCAGTAGACGCATCACGAAAAACGCTTACATGTAACTA
TATTTCCAATAATTTTTATAAATATATTATTAGAATAAGAAATGATAAAACATCTGCATTGGAG
ACTGTGTCAATGTCCTAAATAACAAGTATAAAATAACAGAGGAATTTTTTTTAGTCTTTAACTG
TATTAGTTTTCAGTTTCTAATTTTTTAGCTCTGTTGGTCTTATAGACCTTTGTTTCCCCCTCAG
GCTTTGAAGGTCTTTGCACTTAATTAACGACTCCATCTGTCCCAAAATGATGCTATTTCTCCAC
CTACCCCTTATCTCAACCAATCACAACCATTCTCCATTTGATTTCTTCACCTACTTTCTCTTCT
CAACCAATCACAACCTTCCCCAAATCATTTCCACCTACTTTGTTAATACCAATGCTCAATGCCA
GAAATGCTTACGTTTTGGGACGGAGGTAGTACAGACTATAGAGAATATTGTAATATATATTTAT
CAGCAGGGTCCTCCCTACTATTTCCCTTTAAACAATCAAATTGGCATATAAGGAACACAAAAAT
AAAACTGTGAAGATTGTAACCAAGAGAAGTAGCATACCATGGCCATCGTATTATCCAAACCAGC
ACTCACTCCAAAATCTGTTATCTTTGCCTCACCCTTGAGATTTACCAGCAAATTTGCTGGCTTT
ATATCTCTATGCACTAGATGTCTTACTTCATGCAAGTAGCGCAAACCCTGTAGAATTGTACAAC
AGAACAAATTATATAGTTTAAAAGGTTGATCAACCAGCCTGAGTTATACTAACAATAACATAGA
AATGAAGGGCAGATGTGAAAGATCCATACGAGCAATACTTTCTGCAGCATATGTGCAAGAACTG
GTTCTGGTATTGATTTCTTAATCTTTATAACATTAGCTAAGGACCCACCATCCATGTATTCAAG
GGCGATGCTTATTTGTCCAGAATCAGGCATGTAGAATGCACCCTGGAATTCAACTAAACCAATA
TAACAACATGCTTCACATAATGTTCTCATCTCATTCAGAATTTGTTGTCTCTTCTC
						
					

			
		

Sequences
Splice junction sequence	AATCAGGCATGTAGAATGCACCCTGGAATTCAACTAAACCAATATAACAACATGCTTCACATAA TGTTCTCATCTCATTCAGAATTTGTTGTCTCTTCTCctgcagcatgaggttggctgggccttca ttcacattatatggaaatttaccagtagcacactccaatattgctagtccaagactccaaatat cagcagca
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	CTGCAGCATGAGGTTGGCTGGGCCTTCATTCACATTATATGGAAATTTACCAGTAGCACACTCC AATATTGCTAGTCCAAGACTCCAAATATCAGCAGCATAAGAGTAGTTCTCGTTACGAATTCTCT CAGGTGACATATATGTGACTGTGCCTACAAAGGTAGCACACTGGAACATATTTATTTAGCAGAA AATATATCGTTGATTCAATCTAAATGATTTGACGTCATTGAAGTACTATTCAAGAACAACTAGC ATACAAGAAACATCAAAGATCATGCACACATGACACATCATATCCTGTCTGCAGAATGCCAAGT TTCATGATTCACTTGCTTATGTATATACTCCTTCCGTTCACAAATAGGTACTCCCTCCGTCCCA AAATAGAAGAACCTATGATCGGATGGGACATTTCCTACTACTACGAATCTGGACAGGCAGTCTG TCTAGATTCATAGTATTAGAAAATGTCCCATCCGTTTAGGTTCTCATATTTTGGGACGGAGGGA GTATCATTTTAAGATTCACGCAGTCAAACCTTGAAAATATTAAATCAACAATATATGCAAAAGA ATTAGGATTGGATATTAAAAATGATACCAGTAGACGCATCACGAAAAACGCTTACATGTAACTA TATTTCCAATAATTTTTATAAATATATTATTAGAATAAGAAATGATAAAACATCTGCATTGGAG ACTGTGTCAATGTCCTAAATAACAAGTATAAAATAACAGAGGAATTTTTTTTAGTCTTTAACTG TATTAGTTTTCAGTTTCTAATTTTTTAGCTCTGTTGGTCTTATAGACCTTTGTTTCCCCCTCAG GCTTTGAAGGTCTTTGCACTTAATTAACGACTCCATCTGTCCCAAAATGATGCTATTTCTCCAC CTACCCCTTATCTCAACCAATCACAACCATTCTCCATTTGATTTCTTCACCTACTTTCTCTTCT CAACCAATCACAACCTTCCCCAAATCATTTCCACCTACTTTGTTAATACCAATGCTCAATGCCA GAAATGCTTACGTTTTGGGACGGAGGTAGTACAGACTATAGAGAATATTGTAATATATATTTAT CAGCAGGGTCCTCCCTACTATTTCCCTTTAAACAATCAAATTGGCATATAAGGAACACAAAAAT AAAACTGTGAAGATTGTAACCAAGAGAAGTAGCATACCATGGCCATCGTATTATCCAAACCAGC ACTCACTCCAAAATCTGTTATCTTTGCCTCACCCTTGAGATTTACCAGCAAATTTGCTGGCTTT ATATCTCTATGCACTAGATGTCTTACTTCATGCAAGTAGCGCAAACCCTGTAGAATTGTACAAC AGAACAAATTATATAGTTTAAAAGGTTGATCAACCAGCCTGAGTTATACTAACAATAACATAGA AATGAAGGGCAGATGTGAAAGATCCATACGAGCAATACTTTCTGCAGCATATGTGCAAGAACTG GTTCTGGTATTGATTTCTTAATCTTTATAACATTAGCTAAGGACCCACCATCCATGTATTCAAG GGCGATGCTTATTTGTCCAGAATCAGGCATGTAGAATGCACCCTGGAATTCAACTAAACCAATA TAACAACATGCTTCACATAATGTTCTCATCTCATTCAGAATTTGTTGTCTCTTCTC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.150685442

Conservation Information
Conserved circRNAs	NA
PMCS	0.150685442

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							15817970-15816405(+)
15816537-15816471(-)
						
						Potential amino acid sequence
						
							MHPGIQLNQYNNMLHIMFSSHSEFVVSSPAA*(+)
MSPERIRNENYSYAADIWSLGLAILECATGKFPYNVNEGPANLMLQEKRQQILNEMRTLCEACC
YIGLVEFQGAFYMPDSGQISIALEYMDGGSLANVIKIKKSIPEPVLAHMLQKVLLGLRYLHEVR
HLVHRDIKPANLLVNLKGEAKITDFGVSAGLDNTMAMAQSHICHLREFVTRTTLMLLIFGVLD*
(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	15817970-15816405(+) 15816537-15816471(-)
Potential amino acid sequence	MHPGIQLNQYNNMLHIMFSSHSEFVVSSPAA(+) MSPERIRNENYSYAADIWSLGLAILECATGKFPYNVNEGPANLMLQEKRQQILNEMRTLCEACC YIGLVEFQGAFYMPDSGQISIALEYMDGGSLANVIKIKKSIPEPVLAHMLQKVLLGLRYLHEVR HLVHRDIKPANLLVNLKGEAKITDFGVSAGLDNTMAMAQSHICHLREFVTRTTLMLLIFGVLD (-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os06g0473200_circ_g.5

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