Plant Circular RNA Database

Detail information of Os07g0658400_circ_g.31

			
						 General Information
					
						CircRNA Name
						Os07g0658400_circ_g.31
					
						ID in PlantcircBase
						osa_circ_035133
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 27731892-27734285  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0658400						
					
						Parent gene annotation
						
							Ferredoxin-dependent glutamate synthase, Leaf senescence and nit
rogen remobilization (Os07t0658400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0658400_circ_g.13 Os07g0658400_circ_g.14 Os07g0658400_circ_g.15 Os07g0658400_circ_g.16 Os07g0658400_circ_g.17 Os07g0658400_circ_g.18 Os07g0658400_circ_g.19 Os07g0658400_circ_g.20 Os07g0658400_circ_g.21 Os07g0658400_circ_g.22 Os07g0658400_circ_g.23 Os07g0658400_circ_g.24 Os07g0658400_circ_g.25 Os07g0658400_circ_g.26 Os07g0658400_circ_g.27 Os07g0658400_circ_g.28 Os07g0658400_circ_g.29 Os07g0658400_circ_g.30 Os07g0658400_circ_g.32 Os07g0658400_circ_g.33 Os07g0658400_circ_g.34 Os07g0658400_circ_g.35 Os07g0658400_circ_g.36 Os07g0658400_circ_g.37 Os07g0658400_circ_g.38 Os07g0658400_circ_g.39 						
					
						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
						Os07t0658400-02:4

General Information
CircRNA Name	Os07g0658400_circ_g.31
ID in PlantcircBase	osa_circ_035133
Alias	NA
Organism	Oryza sativa
Position	chr7: 27731892-27734285 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0658400
Parent gene annotation	Ferredoxin-dependent glutamate synthase, Leaf senescence and nit rogen remobilization (Os07t0658400-02)
Parent gene strand	-
Alternative splicing	Os07g0658400_circ_g.13 Os07g0658400_circ_g.14 Os07g0658400_circ_g.15 Os07g0658400_circ_g.16 Os07g0658400_circ_g.17 Os07g0658400_circ_g.18 Os07g0658400_circ_g.19 Os07g0658400_circ_g.20 Os07g0658400_circ_g.21 Os07g0658400_circ_g.22 Os07g0658400_circ_g.23 Os07g0658400_circ_g.24 Os07g0658400_circ_g.25 Os07g0658400_circ_g.26 Os07g0658400_circ_g.27 Os07g0658400_circ_g.28 Os07g0658400_circ_g.29 Os07g0658400_circ_g.30 Os07g0658400_circ_g.32 Os07g0658400_circ_g.33 Os07g0658400_circ_g.34 Os07g0658400_circ_g.35 Os07g0658400_circ_g.36 Os07g0658400_circ_g.37 Os07g0658400_circ_g.38 Os07g0658400_circ_g.39
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	Os07t0658400-02:4

			
						 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  
						
							TACCTCAGATGCAACATAAACAAAATCATCAGATGTTCTCCAATAGCGTGCTGGGCGGAGACCA
TTTCGATCAAGACATGCTCCTACTGTCCTTCCATCAttgtgcaaatcgctgtttgaaataatca
aataacatgtgtggcttttgtgacaacacagctaatggaatgtcgtcacccatacaaaatgttg
gttccttg

									
								

					

						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
						
							TTGTGCAAATCGCTGTTTGAAATAATCAAATAACATGTGTGGCTTTTGTGACAACACAGCTAAT
GGAATGTCGTCACCCATACAAAATGTTGGTTCCTTGCCTTGTGAAGCCATTGTTTCAATTACCA
TTTGAACATCTTCACTCGAATATCCAAAGGCCCTGAAGACAAAGACAGTAATCTCAAATTAAAT
ATCAAGCCTGAATGACCATCTAGCATATATAAGCTTTATGTCTCATCAAATTTTCTGTGCAGCA
ACGCCTGATACTCTGATCTACAGAAAAATAGGTAAGTGCGGAGTAGTACACATCGAGAACATAC
CAAAATCAGCCAAATTGGTTGAAAAGAATATTTCTAGGCATGGCGTTTTACCAAGATCAAAAGC
AAAGTTTTGGGCATATCCTCTGAAATCTGAATGAATCTTACTTCTTCTGGTGTATTCAGAAATT
GAGATGTTTCACAATTTACACCTTCACCATATTTAGTTGCTATTGTGATATTTCACAAGATATA
ACACTACAAAAAATGGATGGCCTGCCAATATAATCTTTGTATTAATGGTTAGTTTAGGTTTACT
GGTGTTTCATTAAAAAAATTACTGGCGCATTCTGATACAATTTTATTTTGAAATGGGAGTTTTT
CTTTTTTTTTATTGGGATATGTACAACTAGAAAATAGAAAAACTAAAGACGCTACATTCTATTT
CTCTATCGCATTGGGCATAGATAATGGAAAGGAACAATTAAGTTAGATAATGATATAATCAGCT
GTAGACTACATTTGTCCATCAGGAAGAGTAAAACTACATTGCAATACAAGGAATTTAATTTATA
TATGTAAAGTTACACAAATATTTTTCAACACAAATACCAGGTACAAATGTACAATCAGCACATA
GACTTGCTATCTCAAGCACAAACATACTTAGGTTCCACAAGGAGAAAAGAACAAAAGAGATGAT
TGTTTAGGAGAACAGTAGGGGAGTTCCCAATTGAAGGAAAAGAAAGAACAGATGTTCAAGATCG
ATGGAACAAAGTCTGAGGGATTCTTACTGCTGGTGTCTCAAGACCGTTTCATTGTCCATAGCAA
CAGATGACTGGAAGTTGACAGGCTTTATTGAACGTGTACTTTGCTGCAACCAGGATCCATAGGG
GTTCGCTGAAGCCACACTTTTCTTCACTTCTGTGTTTTCAAGCACCTAAGATGATTCATGAGGT
TTAGCACATATATTTGAATTGTCTGGAATACTCAAAGCAAGAAAGGAAAATGGTTATTTCATTT
CTATTCTAACCTGGCCAGTTTGTAGGTCAACCGTTATCATCATTCCAGGACCCAATCTTCCTTT
CATTACTACCTTTGACTCATCCATTGGTATAACACCAACCTGTAGATTGTCATAAAAAAAAAAG
CTAGTGATCAGTAAGAACCATACAATATAGAACTTTGGGGACTCCCACAGGGCATTTAAGAAAG
TGATCCAAAGTAACTCCATCAAGTGTTGCAGTATGGTGGCACAAGGTTAATATTTTATTGTCAT
GATTTTAAATATAATATATCGCATTTCAACTGCTCAAAAGATAGTAAAAAATAGGGTAATAGAG
TATGAATTGCCATCCAAAGAGTCGAACATGATTTGGACTTAGCAAACTTAAGCATAAGTTGACT
TAACAATTTCATGAAGCAACTCGTCTATCAAGAGCAGCAGTGATCATCTACGTAAACCAATTCT
TCAAATTATGCATCCAGTAAGCCGTAATTAAATGCTCAATGGTGTATGCAATACTATATAAAAA
GCTGCCGGTATAAGGAAGGTGTGAGGGAAGCTTCTTTAAGACAGAGGAAAGGAAGAATAGCATG
GCATCCATGTACCCTGCAAATGCTATTTACTTCACTACAATTGAGGTACTGTGCATTTACTCTG
CCAACTTAATTGCCATGTGGTATCATTATAGGATGATACCACACATGCATGGGCATAAAACATA
ACATCCTAATAGGAACGAAAACACTAACTTCGTAATTTTCTCCTAATCACCTGTTGTAGATGTC
AGACCTACACTTTAGCAAATGGACACAATACTTACTCAATGATATCTGAACTCTGCGGTTTGGT
ATAGAAGGGTGTCAGTATATCTGCAATAAGTTATTGGCAGATAAACCAAATGCTCCAATTCAAG
AATTTCAAAATGGAGATTTCACTATACATGAGAATATCAATGTTTCTCTCTAATAACATTGTCA
CCGAACAATCAATTCTATACAGAAGAATAAAATTACCAGAACATCAAAAGGGCATACCTCAGAT
GCAACATAAACAAAATCATCAGATGTTCTCCAATAGCGTGCTGGGCGGAGACCATTTCGATCAA
GACATGCTCCTACTGTCCTTCCATCA
						
					

			
		

Sequences
Splice junction sequence	TACCTCAGATGCAACATAAACAAAATCATCAGATGTTCTCCAATAGCGTGCTGGGCGGAGACCA TTTCGATCAAGACATGCTCCTACTGTCCTTCCATCAttgtgcaaatcgctgtttgaaataatca aataacatgtgtggcttttgtgacaacacagctaatggaatgtcgtcacccatacaaaatgttg gttccttg
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	TTGTGCAAATCGCTGTTTGAAATAATCAAATAACATGTGTGGCTTTTGTGACAACACAGCTAAT GGAATGTCGTCACCCATACAAAATGTTGGTTCCTTGCCTTGTGAAGCCATTGTTTCAATTACCA TTTGAACATCTTCACTCGAATATCCAAAGGCCCTGAAGACAAAGACAGTAATCTCAAATTAAAT ATCAAGCCTGAATGACCATCTAGCATATATAAGCTTTATGTCTCATCAAATTTTCTGTGCAGCA ACGCCTGATACTCTGATCTACAGAAAAATAGGTAAGTGCGGAGTAGTACACATCGAGAACATAC CAAAATCAGCCAAATTGGTTGAAAAGAATATTTCTAGGCATGGCGTTTTACCAAGATCAAAAGC AAAGTTTTGGGCATATCCTCTGAAATCTGAATGAATCTTACTTCTTCTGGTGTATTCAGAAATT GAGATGTTTCACAATTTACACCTTCACCATATTTAGTTGCTATTGTGATATTTCACAAGATATA ACACTACAAAAAATGGATGGCCTGCCAATATAATCTTTGTATTAATGGTTAGTTTAGGTTTACT GGTGTTTCATTAAAAAAATTACTGGCGCATTCTGATACAATTTTATTTTGAAATGGGAGTTTTT CTTTTTTTTTATTGGGATATGTACAACTAGAAAATAGAAAAACTAAAGACGCTACATTCTATTT CTCTATCGCATTGGGCATAGATAATGGAAAGGAACAATTAAGTTAGATAATGATATAATCAGCT GTAGACTACATTTGTCCATCAGGAAGAGTAAAACTACATTGCAATACAAGGAATTTAATTTATA TATGTAAAGTTACACAAATATTTTTCAACACAAATACCAGGTACAAATGTACAATCAGCACATA GACTTGCTATCTCAAGCACAAACATACTTAGGTTCCACAAGGAGAAAAGAACAAAAGAGATGAT TGTTTAGGAGAACAGTAGGGGAGTTCCCAATTGAAGGAAAAGAAAGAACAGATGTTCAAGATCG ATGGAACAAAGTCTGAGGGATTCTTACTGCTGGTGTCTCAAGACCGTTTCATTGTCCATAGCAA CAGATGACTGGAAGTTGACAGGCTTTATTGAACGTGTACTTTGCTGCAACCAGGATCCATAGGG GTTCGCTGAAGCCACACTTTTCTTCACTTCTGTGTTTTCAAGCACCTAAGATGATTCATGAGGT TTAGCACATATATTTGAATTGTCTGGAATACTCAAAGCAAGAAAGGAAAATGGTTATTTCATTT CTATTCTAACCTGGCCAGTTTGTAGGTCAACCGTTATCATCATTCCAGGACCCAATCTTCCTTT CATTACTACCTTTGACTCATCCATTGGTATAACACCAACCTGTAGATTGTCATAAAAAAAAAAG CTAGTGATCAGTAAGAACCATACAATATAGAACTTTGGGGACTCCCACAGGGCATTTAAGAAAG TGATCCAAAGTAACTCCATCAAGTGTTGCAGTATGGTGGCACAAGGTTAATATTTTATTGTCAT GATTTTAAATATAATATATCGCATTTCAACTGCTCAAAAGATAGTAAAAAATAGGGTAATAGAG TATGAATTGCCATCCAAAGAGTCGAACATGATTTGGACTTAGCAAACTTAAGCATAAGTTGACT TAACAATTTCATGAAGCAACTCGTCTATCAAGAGCAGCAGTGATCATCTACGTAAACCAATTCT TCAAATTATGCATCCAGTAAGCCGTAATTAAATGCTCAATGGTGTATGCAATACTATATAAAAA GCTGCCGGTATAAGGAAGGTGTGAGGGAAGCTTCTTTAAGACAGAGGAAAGGAAGAATAGCATG GCATCCATGTACCCTGCAAATGCTATTTACTTCACTACAATTGAGGTACTGTGCATTTACTCTG CCAACTTAATTGCCATGTGGTATCATTATAGGATGATACCACACATGCATGGGCATAAAACATA ACATCCTAATAGGAACGAAAACACTAACTTCGTAATTTTCTCCTAATCACCTGTTGTAGATGTC AGACCTACACTTTAGCAAATGGACACAATACTTACTCAATGATATCTGAACTCTGCGGTTTGGT ATAGAAGGGTGTCAGTATATCTGCAATAAGTTATTGGCAGATAAACCAAATGCTCCAATTCAAG AATTTCAAAATGGAGATTTCACTATACATGAGAATATCAATGTTTCTCTCTAATAACATTGTCA CCGAACAATCAATTCTATACAGAAGAATAAAATTACCAGAACATCAAAAGGGCATACCTCAGAT GCAACATAAACAAAATCATCAGATGTTCTCCAATAGCGTGCTGGGCGGAGACCATTTCGATCAA GACATGCTCCTACTGTCCTTCCATCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.130375821

Conservation Information
Conserved circRNAs	NA
PMCS	0.130375821

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							27734195-27731913(+)
						
						Potential amino acid sequence
						
							MQHKQNHQMFSNSVLGGDHFDQDMLLLSFHHCANRCLK*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	27734195-27731913(+)
Potential amino acid sequence	MQHKQNHQMFSNSVLGGDHFDQDMLLLSFHHCANRCLK*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0658400_circ_g.31

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