Plant Circular RNA Database

Detail information of Os08g0556700_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os08g0556700_circ_g.1
					
						ID in PlantcircBase
						osa_circ_038022
					
						Alias
						Os_ciR11603
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr8: 27860247-27862294  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os08g0556700						
					
						Parent gene annotation
						
							Similar to phosphatase/ protein tyrosine phosphatase. (Os08t0556
700-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os08g0556700_circ_g.2 Os08g0556700_circ_g.3 Os08g0556700_circ_g.4 						
					
						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
						Os08t0556700-01:2

General Information
CircRNA Name	Os08g0556700_circ_g.1
ID in PlantcircBase	osa_circ_038022
Alias	Os_ciR11603
Organism	Oryza sativa
Position	chr8: 27860247-27862294 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	find_circ
Parent gene	Os08g0556700
Parent gene annotation	Similar to phosphatase/ protein tyrosine phosphatase. (Os08t0556 700-01)
Parent gene strand	-
Alternative splicing	Os08g0556700_circ_g.2 Os08g0556700_circ_g.3 Os08g0556700_circ_g.4
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	Os08t0556700-01:2

			
						 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  
						
							GCTCAAACTGTGATCCACTATTATTATCAGTTATCGTTGGAACTCCCATTCGCTCTGCAAATGG
ATGGCCAAATGCTAGCCAATCCTTTTCCACAAGGGCcttcattgcttctgtgtactttttattc
atggcatgccattgagattcaagatcaccaccttgagattcaatggggcatgtccatctcaaat
aaaattgg

									
								

					

						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: 1958
Transcript exons: 27860247-27861312,27861403-27862294
CTTCATTGCTTCTGTGTACTTTTTATTCATGGCATGCCATTGAGATTCAAGATCACCACCTTGA
GATTCAATGGGGCATGTCCATCTCAAATAAAATTGGGGCCAAAGGGTAGGAGCAAGTGCTGCAG
CAGGTGGCACTAGGGGACCATTATGCTTTAATGGATCATAGAATGGATTACGATGCTTATGGAA
GCTGCCACCAGAAGCTCGGAGATCAGCCAAGTACGTCCACATGCAATGGCAAGAGCTTACAGCA
CCAGATTGCTCCCTTTCTCGCTCACTTGCATTTTAAATTGAAGTCAGATATGCACGATATTTTC
CAAACAAGATAGATCAAGAACTATAAAAGAAAGGAGTCAAACATTGCTTATTACCAAGAGACAG
GTGCATACATGAACAACAAACTATAATTTTCTGGACAAGCCCGTTTTGGGAAGACACAGTCAAA
AGAGTTTCGGACCACATCTAGTGGACTACACAGCCTAAGAATGGTGTAACAACTAACATTATTA
CTGGCAAACTATTAACTATATTGTTCACATGTAGCCAGCTAATACTTCAAAATAATGTGAGAAC
CAGACACATTAGAAGACAGTACAAACTTACAACAGATAAATCATGACAGATGATGAATAGAAAC
ATTTCACTGCTCTTTCTTTTCCCCCCTAATTGACTAGATGGCAATATAGCATAAAGCCTTCCAT
TCGTGAGTCATGACATCATGGAAAACCGTAGAATCTTACAATGGTAATATGAAAAAACGAAAAT
CATGTACCCTCAAAGAGAGACTCAGTCTCAAACAGACCCCTGCAACTAATGTTTCAATTTACCT
AAGCATGTCACTCTAGTCAGAAAAGAACTTCCATTATTTTGGACAGATGAAAACATGAGCATGT
CCGCATGTCTTTATTTGATTGCTTCCTCTACTCGTTCACTTATATTCACTCAATCACAAAATAT
ACATATGAAAGTAGCTGCAATGAGATATCTAGATTAAATACCTATTGCACAAGAAGTTCCCAAA
GCGGCATGACAACACACAATCCATAAAGTCAACAAGGAATTTAGATGAGAACTCAAATGCAGAT
GGATACAAACGTAACAACTGAGAAATACAATCCAGCCACTGAAAAATAAGATATGAGTGTTCTG
AGGTGGGTTAATACAAGTTTTGAGTGATACAGAAACAATTGATATCTTAATCACAAGATATTCA
CTGCGAGAATTGCCAAATGGATAATGGTTCGCATTGTTCATAAGGAAGATTATTAAAAAGCCAG
AATGCAGTCACTTGAATGTAGTAGTCACTATAGCACCGCCTGTTATTAACTAATAATTTCAATA
TAAAAATGGAAACCATCTGCCATGCATGATTTGCGAGGGCGTGCAACTTAATCCTAAATGCTGA
GCGGTCTTCAGACTCTTCAGTGCTCAGTTTGTACAATACAACTCCAGAAGAGTATTAGCTTATG
CTTACCCTCACAAAAGAGTATAACATCTGCCATACAGGCAATAAGGAAACCAATTACAGAATCA
GAAAAGGTTGATTGTGTATGAGAAAATAAAAGAAGAAAAAACATTATTCATTTAGCTCACTGTT
GGCAGTTGCTGATGCTTGTTTATGAATTGAGGTACATTGGGAGAACTGAGACTCAGTTACATCA
AATAAATTTGACTGGAAAAGTACTGTTTTAACACAGGGCGCCCAAGAAAGAATAGATTACCTGT
AACAGTATGGGTGAAGAGTTGTTTGATGTCTGGGATTGACCAGAAGTAGTATTAGACGTTGACA
CTGATGATCCTAAAGCACCTCTGTTTGGTGAATTGCTCAAAGTCCCAAGAGAAGGTTGTCTTAG
CAGCTCAAACTGTGATCCACTATTATTATCAGTTATCGTTGGAACTCCCATTCGCTCTGCAAAT
GGATGGCCAAATGCTAGCCAATCCTTTTCCACAAGGGC
						
					

						Genomic sequence
						
							CTTCATTGCTTCTGTGTACTTTTTATTCATGGCATGCCATTGAGATTCAAGATCACCACCTTGA
GATTCAATGGGGCATGTCCATCTCAAATAAAATTGGGGCCAAAGGGTAGGAGCAAGTGCTGCAG
CAGGTGGCACTAGGGGACCATTATGCTTTAATGGATCATAGAATGGATTACGATGCTTATGGAA
GCTGCCACCAGAAGCTCGGAGATCAGCCAAGTACGTCCACATGCAATGGCAAGAGCTTACAGCA
CCAGATTGCTCCCTTTCTCGCTCACTTGCATTTTAAATTGAAGTCAGATATGCACGATATTTTC
CAAACAAGATAGATCAAGAACTATAAAAGAAAGGAGTCAAACATTGCTTATTACCAAGAGACAG
GTGCATACATGAACAACAAACTATAATTTTCTGGACAAGCCCGTTTTGGGAAGACACAGTCAAA
AGAGTTTCGGACCACATCTAGTGGACTACACAGCCTAAGAATGGTGTAACAACTAACATTATTA
CTGGCAAACTATTAACTATATTGTTCACATGTAGCCAGCTAATACTTCAAAATAATGTGAGAAC
CAGACACATTAGAAGACAGTACAAACTTACAACAGATAAATCATGACAGATGATGAATAGAAAC
ATTTCACTGCTCTTTCTTTTCCCCCCTAATTGACTAGATGGCAATATAGCATAAAGCCTTCCAT
TCGTGAGTCATGACATCATGGAAAACCGTAGAATCTTACAATGGTAATATGAAAAAACGAAAAT
CATGTACCCTCAAAGAGAGACTCAGTCTCAAACAGACCCCTGCAACTAATGTTTCAATTTACCT
AAGCATGTCACTCTAGTCAGAAAAGAACTTCCATTATTTTGGACAGATGAAAACATGAGCATGT
CCGCATGTCTTTATTTGATTGCTTCCTCTACTCGTTCACTTATATTCACTCAATCACAAAATAT
ACATATGAAAGTAGCTGCAATGAGATATCTAGATTAAATACCTATTGCACAAGAAGTTCCCAAA
GCGGCATGACAACACACAATCCATAAAGTCAACAAGGAATTTCTGCAGTGAAAAGCAGTTCAGG
TTATAAAAATTCATGAAGAGACCTAGTTTCAGCAGAGTAATGCAGCTGCAAAAGAGGAGACGAC
TTACAGATGAGAACTCAAATGCAGATGGATACAAACGTAACAACTGAGAAATACAATCCAGCCA
CTGAAAAATAAGATATGAGTGTTCTGAGGTGGGTTAATACAAGTTTTGAGTGATACAGAAACAA
TTGATATCTTAATCACAAGATATTCACTGCGAGAATTGCCAAATGGATAATGGTTCGCATTGTT
CATAAGGAAGATTATTAAAAAGCCAGAATGCAGTCACTTGAATGTAGTAGTCACTATAGCACCG
CCTGTTATTAACTAATAATTTCAATATAAAAATGGAAACCATCTGCCATGCATGATTTGCGAGG
GCGTGCAACTTAATCCTAAATGCTGAGCGGTCTTCAGACTCTTCAGTGCTCAGTTTGTACAATA
CAACTCCAGAAGAGTATTAGCTTATGCTTACCCTCACAAAAGAGTATAACATCTGCCATACAGG
CAATAAGGAAACCAATTACAGAATCAGAAAAGGTTGATTGTGTATGAGAAAATAAAAGAAGAAA
AAACATTATTCATTTAGCTCACTGTTGGCAGTTGCTGATGCTTGTTTATGAATTGAGGTACATT
GGGAGAACTGAGACTCAGTTACATCAAATAAATTTGACTGGAAAAGTACTGTTTTAACACAGGG
CGCCCAAGAAAGAATAGATTACCTGTAACAGTATGGGTGAAGAGTTGTTTGATGTCTGGGATTG
ACCAGAAGTAGTATTAGACGTTGACACTGATGATCCTAAAGCACCTCTGTTTGGTGAATTGCTC
AAAGTCCCAAGAGAAGGTTGTCTTAGCAGCTCAAACTGTGATCCACTATTATTATCAGTTATCG
TTGGAACTCCCATTCGCTCTGCAAATGGATGGCCAAATGCTAGCCAATCCTTTTCCACAAGGGC
						
					

			
		

Sequences
Splice junction sequence	GCTCAAACTGTGATCCACTATTATTATCAGTTATCGTTGGAACTCCCATTCGCTCTGCAAATGG ATGGCCAAATGCTAGCCAATCCTTTTCCACAAGGGCcttcattgcttctgtgtactttttattc atggcatgccattgagattcaagatcaccaccttgagattcaatggggcatgtccatctcaaat aaaattgg
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: 1958 Transcript exons: 27860247-27861312,27861403-27862294 CTTCATTGCTTCTGTGTACTTTTTATTCATGGCATGCCATTGAGATTCAAGATCACCACCTTGA GATTCAATGGGGCATGTCCATCTCAAATAAAATTGGGGCCAAAGGGTAGGAGCAAGTGCTGCAG CAGGTGGCACTAGGGGACCATTATGCTTTAATGGATCATAGAATGGATTACGATGCTTATGGAA GCTGCCACCAGAAGCTCGGAGATCAGCCAAGTACGTCCACATGCAATGGCAAGAGCTTACAGCA CCAGATTGCTCCCTTTCTCGCTCACTTGCATTTTAAATTGAAGTCAGATATGCACGATATTTTC CAAACAAGATAGATCAAGAACTATAAAAGAAAGGAGTCAAACATTGCTTATTACCAAGAGACAG GTGCATACATGAACAACAAACTATAATTTTCTGGACAAGCCCGTTTTGGGAAGACACAGTCAAA AGAGTTTCGGACCACATCTAGTGGACTACACAGCCTAAGAATGGTGTAACAACTAACATTATTA CTGGCAAACTATTAACTATATTGTTCACATGTAGCCAGCTAATACTTCAAAATAATGTGAGAAC CAGACACATTAGAAGACAGTACAAACTTACAACAGATAAATCATGACAGATGATGAATAGAAAC ATTTCACTGCTCTTTCTTTTCCCCCCTAATTGACTAGATGGCAATATAGCATAAAGCCTTCCAT TCGTGAGTCATGACATCATGGAAAACCGTAGAATCTTACAATGGTAATATGAAAAAACGAAAAT CATGTACCCTCAAAGAGAGACTCAGTCTCAAACAGACCCCTGCAACTAATGTTTCAATTTACCT AAGCATGTCACTCTAGTCAGAAAAGAACTTCCATTATTTTGGACAGATGAAAACATGAGCATGT CCGCATGTCTTTATTTGATTGCTTCCTCTACTCGTTCACTTATATTCACTCAATCACAAAATAT ACATATGAAAGTAGCTGCAATGAGATATCTAGATTAAATACCTATTGCACAAGAAGTTCCCAAA GCGGCATGACAACACACAATCCATAAAGTCAACAAGGAATTTAGATGAGAACTCAAATGCAGAT GGATACAAACGTAACAACTGAGAAATACAATCCAGCCACTGAAAAATAAGATATGAGTGTTCTG AGGTGGGTTAATACAAGTTTTGAGTGATACAGAAACAATTGATATCTTAATCACAAGATATTCA CTGCGAGAATTGCCAAATGGATAATGGTTCGCATTGTTCATAAGGAAGATTATTAAAAAGCCAG AATGCAGTCACTTGAATGTAGTAGTCACTATAGCACCGCCTGTTATTAACTAATAATTTCAATA TAAAAATGGAAACCATCTGCCATGCATGATTTGCGAGGGCGTGCAACTTAATCCTAAATGCTGA GCGGTCTTCAGACTCTTCAGTGCTCAGTTTGTACAATACAACTCCAGAAGAGTATTAGCTTATG CTTACCCTCACAAAAGAGTATAACATCTGCCATACAGGCAATAAGGAAACCAATTACAGAATCA GAAAAGGTTGATTGTGTATGAGAAAATAAAAGAAGAAAAAACATTATTCATTTAGCTCACTGTT GGCAGTTGCTGATGCTTGTTTATGAATTGAGGTACATTGGGAGAACTGAGACTCAGTTACATCA AATAAATTTGACTGGAAAAGTACTGTTTTAACACAGGGCGCCCAAGAAAGAATAGATTACCTGT AACAGTATGGGTGAAGAGTTGTTTGATGTCTGGGATTGACCAGAAGTAGTATTAGACGTTGACA CTGATGATCCTAAAGCACCTCTGTTTGGTGAATTGCTCAAAGTCCCAAGAGAAGGTTGTCTTAG CAGCTCAAACTGTGATCCACTATTATTATCAGTTATCGTTGGAACTCCCATTCGCTCTGCAAAT GGATGGCCAAATGCTAGCCAATCCTTTTCCACAAGGGC
Genomic sequence	CTTCATTGCTTCTGTGTACTTTTTATTCATGGCATGCCATTGAGATTCAAGATCACCACCTTGA GATTCAATGGGGCATGTCCATCTCAAATAAAATTGGGGCCAAAGGGTAGGAGCAAGTGCTGCAG CAGGTGGCACTAGGGGACCATTATGCTTTAATGGATCATAGAATGGATTACGATGCTTATGGAA GCTGCCACCAGAAGCTCGGAGATCAGCCAAGTACGTCCACATGCAATGGCAAGAGCTTACAGCA CCAGATTGCTCCCTTTCTCGCTCACTTGCATTTTAAATTGAAGTCAGATATGCACGATATTTTC CAAACAAGATAGATCAAGAACTATAAAAGAAAGGAGTCAAACATTGCTTATTACCAAGAGACAG GTGCATACATGAACAACAAACTATAATTTTCTGGACAAGCCCGTTTTGGGAAGACACAGTCAAA AGAGTTTCGGACCACATCTAGTGGACTACACAGCCTAAGAATGGTGTAACAACTAACATTATTA CTGGCAAACTATTAACTATATTGTTCACATGTAGCCAGCTAATACTTCAAAATAATGTGAGAAC CAGACACATTAGAAGACAGTACAAACTTACAACAGATAAATCATGACAGATGATGAATAGAAAC ATTTCACTGCTCTTTCTTTTCCCCCCTAATTGACTAGATGGCAATATAGCATAAAGCCTTCCAT TCGTGAGTCATGACATCATGGAAAACCGTAGAATCTTACAATGGTAATATGAAAAAACGAAAAT CATGTACCCTCAAAGAGAGACTCAGTCTCAAACAGACCCCTGCAACTAATGTTTCAATTTACCT AAGCATGTCACTCTAGTCAGAAAAGAACTTCCATTATTTTGGACAGATGAAAACATGAGCATGT CCGCATGTCTTTATTTGATTGCTTCCTCTACTCGTTCACTTATATTCACTCAATCACAAAATAT ACATATGAAAGTAGCTGCAATGAGATATCTAGATTAAATACCTATTGCACAAGAAGTTCCCAAA GCGGCATGACAACACACAATCCATAAAGTCAACAAGGAATTTCTGCAGTGAAAAGCAGTTCAGG TTATAAAAATTCATGAAGAGACCTAGTTTCAGCAGAGTAATGCAGCTGCAAAAGAGGAGACGAC TTACAGATGAGAACTCAAATGCAGATGGATACAAACGTAACAACTGAGAAATACAATCCAGCCA CTGAAAAATAAGATATGAGTGTTCTGAGGTGGGTTAATACAAGTTTTGAGTGATACAGAAACAA TTGATATCTTAATCACAAGATATTCACTGCGAGAATTGCCAAATGGATAATGGTTCGCATTGTT CATAAGGAAGATTATTAAAAAGCCAGAATGCAGTCACTTGAATGTAGTAGTCACTATAGCACCG CCTGTTATTAACTAATAATTTCAATATAAAAATGGAAACCATCTGCCATGCATGATTTGCGAGG GCGTGCAACTTAATCCTAAATGCTGAGCGGTCTTCAGACTCTTCAGTGCTCAGTTTGTACAATA CAACTCCAGAAGAGTATTAGCTTATGCTTACCCTCACAAAAGAGTATAACATCTGCCATACAGG CAATAAGGAAACCAATTACAGAATCAGAAAAGGTTGATTGTGTATGAGAAAATAAAAGAAGAAA AAACATTATTCATTTAGCTCACTGTTGGCAGTTGCTGATGCTTGTTTATGAATTGAGGTACATT GGGAGAACTGAGACTCAGTTACATCAAATAAATTTGACTGGAAAAGTACTGTTTTAACACAGGG CGCCCAAGAAAGAATAGATTACCTGTAACAGTATGGGTGAAGAGTTGTTTGATGTCTGGGATTG ACCAGAAGTAGTATTAGACGTTGACACTGATGATCCTAAAGCACCTCTGTTTGGTGAATTGCTC AAAGTCCCAAGAGAAGGTTGTCTTAGCAGCTCAAACTGTGATCCACTATTATTATCAGTTATCG TTGGAACTCCCATTCGCTCTGCAAATGGATGGCCAAATGCTAGCCAATCCTTTTCCACAAGGGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007902* 						
					
						PMCS
						0.227428227

Conservation Information
Conserved circRNAs	osi_circ_007902*
PMCS	0.227428227

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27862133-27860356(+)
27860482-27862030(-)
						
						Potential amino acid sequence
						
							MILKHLCLVNCSKSQEKVVLAAQTVIHYYYQLSLELPFALQMDGQMLANPFPQGPSLLLCTFYS
WHAIEIQDHHLEIQWGMSISNKIGAKG*(+)
MWTYLADLRASGGSFHKHRNPFYDPLKHNGPLVPPAAALAPTLWPQFYLRWTCPIESQGGDLES
QWHAMNKKYTEAMKALVEKDWLAFGHPFAERMGVPTITDNNSGSQFELLRQPSLGTLSNSPNRG
ALGSSVSTSNTTSGQSQTSNNSSPILLQVIYSFLGALC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27862133-27860356(+) 27860482-27862030(-)
Potential amino acid sequence	MILKHLCLVNCSKSQEKVVLAAQTVIHYYYQLSLELPFALQMDGQMLANPFPQGPSLLLCTFYS WHAIEIQDHHLEIQWGMSISNKIGAKG(+) MWTYLADLRASGGSFHKHRNPFYDPLKHNGPLVPPAAALAPTLWPQFYLRWTCPIESQGGDLES QWHAMNKKYTEAMKALVEKDWLAFGHPFAERMGVPTITDNNSGSQFELLRQPSLGTLSNSPNRG ALGSSVSTSNTTSGQSQTSNNSSPILLQVIYSFLGALC(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os08g0556700_circ_g.1

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