Plant Circular RNA Database

Detail information of Os07g0507300_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os07g0507300_circ_g.3
					
						ID in PlantcircBase
						osa_circ_033979
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 19261717-19264933  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0507300						
					
						Parent gene annotation
						
							Similar to GCK-like kinase MIK. (Os07t0507300-01);Similar to GCK
-like kinase MIK. (Os07t0507300-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0507300_circ_g.1 Os07g0507300_circ_g.2 Os07g0507300_circ_g.4 Os07g0507300_circ_g.5 Os07g0507300_circ_g.6 Os07g0507300_circ_g.7 Os07g0507300_circ_g.8 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os07t0507300-01:8
Os07t0507300-02:8

General Information
CircRNA Name	Os07g0507300_circ_g.3
ID in PlantcircBase	osa_circ_033979
Alias	NA
Organism	Oryza sativa
Position	chr7: 19261717-19264933 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0507300
Parent gene annotation	Similar to GCK-like kinase MIK. (Os07t0507300-01);Similar to GCK -like kinase MIK. (Os07t0507300-02)
Parent gene strand	-
Alternative splicing	Os07g0507300_circ_g.1 Os07g0507300_circ_g.2 Os07g0507300_circ_g.4 Os07g0507300_circ_g.5 Os07g0507300_circ_g.6 Os07g0507300_circ_g.7 Os07g0507300_circ_g.8
Support reads	1
Tissues	shoot
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	Os07t0507300-01:8 Os07t0507300-02:8

			
						 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  
						
							GGTGAATCTTTCCTTCTGAATGAAGATATTCAACTGCATGTAACAAGTCCCTCAGAATGCATGC
AATAGACAATTCATCTAGAGGAGGGCCAGTTTGGAGcttgaaggagagactacatcccttgtag
ccctctcaaccttgatagtaccagtaccatcatcttcttcaacatgtgttcgaccattttgtgt
ggcatccg

									
								

					

						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: 671
Transcript exons: 19261717-19261848,19261970-19262049,19262628-19262696,19
262806-19262922,19262995-19263063,19263418-19263471,1926
3591-19263628,19264822-19264933
CTTGAAGGAGAGACTACATCCCTTGTAGCCCTCTCAACCTTGATAGTACCAGTACCATCATCTT
CTTCAACATGTGTTCGACCATTTTGTGTGGCATCCGCACTGCTTTTTACTGGAAACTTCGGTCG
CTCTCTTATTCTATCCAGAAGCTTTGGAGATTTTCTAGCATTTCTTACAAAGCGGTGCTTAAGA
AGATCCTTGGCACTTAGCCTCTCTGCTGGATTCTTCTTTAAACATAGTGACACAAACTCCTTCA
TCGGTTTAGAGAAATGCTCATCAAGCTGAGGAGGATTTTCACGAGGTATCATGAAAAGAACTCT
CATGGGATGGATATCTGCCAAAGGGGGTTCACCTTTTGCCATTTCAATAGCAGTTATACCTAAC
GACCAGATATCTGCCTTTTCATTGTACCCGTCAGAGTTTTGAATAACCTCAGGTGCCATCCAAA
AGGGAGTTCCAACAAATGTCTTTCTCCTTGACATTGTTTTAGTCAGCTGCGCAGAAACACCAAA
GTCTGCAACCTTCACATCTCCACTTTCAGTCAGGAGGATATTTGCCGCTTTAATGTCACGGTGA
ATCTTTCCTTCTGAATGAAGATATTCAACTGCATGTAACAAGTCCCTCAGAATGCATGCAATAG
ACAATTCATCTAGAGGAGGGCCAGTTTGGAG
						
					

						Genomic sequence
						
							CTTGAAGGAGAGACTACATCCCTTGTAGCCCTCTCAACCTTGATAGTACCAGTACCATCATCTT
CTTCAACATGTGTTCGACCATTTTGTGTGGCATCCGCACTGCTTTTTACTGGAAACTTCGGTCG
CTCTCTGCCAATAACAGCAATTGAGGAACAAGGGAATCAGATAGGTGTTGAGATGTCTCAATTA
TCAGCAAAAGACTGCTTTTAACTCTTCTCTCTGTTATGAACAGAAGTACTATACCACATACCTT
ATTCTATCCAGAAGCTTTGGAGATTTTCTAGCATTTCTTACAAAGCGGTGCTTAAGAAGATCCT
TGGCACTTAGCCTCTGTGAGAAAGTTATAAAGGGAAGGCGTTAAGGGCAAGGACTTAAAACACA
ATTTTTTGCAGGTTAGACATCAATAATTATCAAATGAGATTGATAAAAAAAGCATAAAGCATTA
AAATTTCCCCCAAACATTACAATATGCCAAATTTGTTGGAAAAACGGGCATATGATGTTTTGTC
CACAATAGCATGTTAAATATCCAGAAAGCTGTTGTACTGTCCCTGATACTCATTCTGTACAACA
TATCATAAGATTTTATTTCTGTTCCCCTTCTAGTCACAAATCATGATCTCAACTATGACAGGTG
GAAGTCCAAATTTAATTTAGTATCAAAAGGAAAACATCGATACTGTGTATGTTTCACTGTAATC
AAGTCCTACGACTAGTCCTAAAGTCAGTCAGGGAGCACGACTTGACTTATGGGCAGAAGATGCA
ATGGAGTGGAGCAAAGGCAGCAACGGTAAGGCAAATCAGGAAACAGTTGGCATCAACATTCTTG
TTTTCATGAATATCTTTGGGAAACAAGAGCAAATGACGTGATTAATGGAACAGGTAGAAGCATG
AAAGAAGAATATTACCTCTGCTGGATTCTTCTTTAAACATAGTGACACAAACTCCTTCATCGGT
TTAGAGAAATGCTCATCAAGCTGCATTTTTTAAAAATTAATATACTATATTCTAGTGGATCAAA
GCAAATGCTTTGCGTATATTGCAATTAAGCATTAAAGAACAGGGATTGAAGATTAACCAAGTGA
CCTGAGGAGGATTTTCACGAGGTATCATGAAAAGAACTCTCATGGGATGGATATCTGCCAAAGG
GGGTTCACCTTTTGCCATTTCAATAGCAGTTATACCTAACGACCAGATATCTGCCTGCATCAGG
ACACAGACTTGGGTAAAAAGTTCAGTAAGCAGCAAACTGTTTAAAGAAAAACGCACAGCTACCT
TTTCATTGTACCCGTCAGAGTTTTGAATAACCTCAGGTGCCATCCAAAAGGGAGTTCCAACAAA
TGTCTACACAATTCAAAATTAAAAGCCATTAGCAATATTACCTTCCAAAAGCAAAGGTTTGTCC
TTGAGCTAAAAACACTACCGAATGATACTAGCAGAACAGGGAGCTTCCATCTTAATTAATACTG
ATAAGTGCTTATGGCTGTATAATTCAAATTTTGAATTGCGCTAAAGCATAAATAATAATCTTGT
GATATGCTTGATTAGATTTATCACCCTCCAAAAGTTTTCCATTTGAGTACAAGTAACGTATGCA
TATAGCCAAAATATGATTGTAGATGAGTCACTAGGTTCCTGGTGCACATATACAGCAATATCGA
GTAACTTGACATTGAAGAATCATGGTTAAGATCGCACCTTTCTCCTTGACATTGTTTTAGTCAG
CTGCGCAGAAACACCAAAGTCTGCAACCTATGGAATAAAAATATAAACGTTTGCATAGATATTG
TAAGCTAAGAATTAATAACAGAACTCAGGACCATCCTGACAATGGAACATAAAATCATTGAGAA
ATCGTAGAAAGGTTATACCTTCACATCTCCACTTTCAGTCAGGAGGATATTTGCCGCTGCAAAA
TATCACAGAATGTGTATATTAGAATGTGTGGTATACTTCACAGGTTCACATTAGTAAAATAGGA
AAGAAAATAAATGAGTCAAAGATCATCAATATATCAGGACTAATCAGTAGTCACACAATAGTGG
GGTCATTCGTTTATGTTCAATCAAATGCTATGAAAATACTAGCATCAAATGTATTGGTATGTTA
CTTCTGTGTAGTGAAGAACAATTTAAATGTGCAACCCATACAACTGCCTGCTAACTCTCCATTA
TCTTTTCATACAGACTCTAATGGTAGACCTATTTGACCCTATTTGACAGTGATCTTCCACATCA
TTGTACCTGTGGAAGTGTGGAAAGGCATTGCAGACTTTCCAGAACTCAATCTTATGTTTAAGAT
TATGCAAGGTTTGCTGGGGTTTTGTTCTCCCTCCATATCCACCAGCAACACTAAACTTTTCAAT
TCATCTAGCGCCAATACTAATGCAATGGCAAATGAAGGTTTTCACCAGCCCTTACATCTTAATC
TGCCAGATTTTAATTAAACAACAGCAAATATCTAATTGTTCTGTGTATCTGAGGATTCCCAAGT
TAGTGAAAAAGAAACTTCACTTTAATAAAAAAACAGTGAGTGACGATTTATCTTGATAGAAAAT
AATAGGTGTAAGTATGCAACGTAACAATAGTGGATGGGGTGAGAAAGAGGTGTCGCCTCTTGAA
CCACATCCTACTAAACCATCCAACTTAAAGATGGGATAAATCAAGAATAATAGTATAATACTAG
TAACATGATATAATTGACCTTTATCAACATCTTTTGAGTTCTGACAATAAAGATAAATGTGCAA
TTGGTATTAACGCATTAGTTCTCAAAGAAAGGAGTGTTAGCCCTGTCCAGAAAGCCTCCTTTAT
AATGGTTTTGTGGATATTGTACTTGGTGGACAGGACAGTAGATATGAGGGTTATCTGGCCCGTA
GTTATTAGGAACACAGCACAACCAACCAGGGGTTGAGGTACTGCAGTCAGAATATACCAGTATG
ATAACAAATGCTGTACAAAGGGAGGTATAGACTGTAGAGTTCTTCAGGACATGTTACATGGCCC
CAATTTTTCCAGTTTGATGACCCAAATGCTTTATTAAATGCTCATATTCAATATAAATCCAGCA
ATAAAAAGGGAAAGGGAGAGAAATAATCAAGACCTTTAATGTCACGGTGAATCTTTCCTTCTGA
ATGAAGATATTCAACTGCATGTAACAAGTCCCTCAGAATGCATGCAATAGACAATTCATCTAGA
GGAGGGCCAGTTTGGAG
						
					

			
		

Sequences
Splice junction sequence	GGTGAATCTTTCCTTCTGAATGAAGATATTCAACTGCATGTAACAAGTCCCTCAGAATGCATGC AATAGACAATTCATCTAGAGGAGGGCCAGTTTGGAGcttgaaggagagactacatcccttgtag ccctctcaaccttgatagtaccagtaccatcatcttcttcaacatgtgttcgaccattttgtgt ggcatccg
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: 671 Transcript exons: 19261717-19261848,19261970-19262049,19262628-19262696,19 262806-19262922,19262995-19263063,19263418-19263471,1926 3591-19263628,19264822-19264933 CTTGAAGGAGAGACTACATCCCTTGTAGCCCTCTCAACCTTGATAGTACCAGTACCATCATCTT CTTCAACATGTGTTCGACCATTTTGTGTGGCATCCGCACTGCTTTTTACTGGAAACTTCGGTCG CTCTCTTATTCTATCCAGAAGCTTTGGAGATTTTCTAGCATTTCTTACAAAGCGGTGCTTAAGA AGATCCTTGGCACTTAGCCTCTCTGCTGGATTCTTCTTTAAACATAGTGACACAAACTCCTTCA TCGGTTTAGAGAAATGCTCATCAAGCTGAGGAGGATTTTCACGAGGTATCATGAAAAGAACTCT CATGGGATGGATATCTGCCAAAGGGGGTTCACCTTTTGCCATTTCAATAGCAGTTATACCTAAC GACCAGATATCTGCCTTTTCATTGTACCCGTCAGAGTTTTGAATAACCTCAGGTGCCATCCAAA AGGGAGTTCCAACAAATGTCTTTCTCCTTGACATTGTTTTAGTCAGCTGCGCAGAAACACCAAA GTCTGCAACCTTCACATCTCCACTTTCAGTCAGGAGGATATTTGCCGCTTTAATGTCACGGTGA ATCTTTCCTTCTGAATGAAGATATTCAACTGCATGTAACAAGTCCCTCAGAATGCATGCAATAG ACAATTCATCTAGAGGAGGGCCAGTTTGGAG
Genomic sequence	CTTGAAGGAGAGACTACATCCCTTGTAGCCCTCTCAACCTTGATAGTACCAGTACCATCATCTT CTTCAACATGTGTTCGACCATTTTGTGTGGCATCCGCACTGCTTTTTACTGGAAACTTCGGTCG CTCTCTGCCAATAACAGCAATTGAGGAACAAGGGAATCAGATAGGTGTTGAGATGTCTCAATTA TCAGCAAAAGACTGCTTTTAACTCTTCTCTCTGTTATGAACAGAAGTACTATACCACATACCTT ATTCTATCCAGAAGCTTTGGAGATTTTCTAGCATTTCTTACAAAGCGGTGCTTAAGAAGATCCT TGGCACTTAGCCTCTGTGAGAAAGTTATAAAGGGAAGGCGTTAAGGGCAAGGACTTAAAACACA ATTTTTTGCAGGTTAGACATCAATAATTATCAAATGAGATTGATAAAAAAAGCATAAAGCATTA AAATTTCCCCCAAACATTACAATATGCCAAATTTGTTGGAAAAACGGGCATATGATGTTTTGTC CACAATAGCATGTTAAATATCCAGAAAGCTGTTGTACTGTCCCTGATACTCATTCTGTACAACA TATCATAAGATTTTATTTCTGTTCCCCTTCTAGTCACAAATCATGATCTCAACTATGACAGGTG GAAGTCCAAATTTAATTTAGTATCAAAAGGAAAACATCGATACTGTGTATGTTTCACTGTAATC AAGTCCTACGACTAGTCCTAAAGTCAGTCAGGGAGCACGACTTGACTTATGGGCAGAAGATGCA ATGGAGTGGAGCAAAGGCAGCAACGGTAAGGCAAATCAGGAAACAGTTGGCATCAACATTCTTG TTTTCATGAATATCTTTGGGAAACAAGAGCAAATGACGTGATTAATGGAACAGGTAGAAGCATG AAAGAAGAATATTACCTCTGCTGGATTCTTCTTTAAACATAGTGACACAAACTCCTTCATCGGT TTAGAGAAATGCTCATCAAGCTGCATTTTTTAAAAATTAATATACTATATTCTAGTGGATCAAA GCAAATGCTTTGCGTATATTGCAATTAAGCATTAAAGAACAGGGATTGAAGATTAACCAAGTGA CCTGAGGAGGATTTTCACGAGGTATCATGAAAAGAACTCTCATGGGATGGATATCTGCCAAAGG GGGTTCACCTTTTGCCATTTCAATAGCAGTTATACCTAACGACCAGATATCTGCCTGCATCAGG ACACAGACTTGGGTAAAAAGTTCAGTAAGCAGCAAACTGTTTAAAGAAAAACGCACAGCTACCT TTTCATTGTACCCGTCAGAGTTTTGAATAACCTCAGGTGCCATCCAAAAGGGAGTTCCAACAAA TGTCTACACAATTCAAAATTAAAAGCCATTAGCAATATTACCTTCCAAAAGCAAAGGTTTGTCC TTGAGCTAAAAACACTACCGAATGATACTAGCAGAACAGGGAGCTTCCATCTTAATTAATACTG ATAAGTGCTTATGGCTGTATAATTCAAATTTTGAATTGCGCTAAAGCATAAATAATAATCTTGT GATATGCTTGATTAGATTTATCACCCTCCAAAAGTTTTCCATTTGAGTACAAGTAACGTATGCA TATAGCCAAAATATGATTGTAGATGAGTCACTAGGTTCCTGGTGCACATATACAGCAATATCGA GTAACTTGACATTGAAGAATCATGGTTAAGATCGCACCTTTCTCCTTGACATTGTTTTAGTCAG CTGCGCAGAAACACCAAAGTCTGCAACCTATGGAATAAAAATATAAACGTTTGCATAGATATTG TAAGCTAAGAATTAATAACAGAACTCAGGACCATCCTGACAATGGAACATAAAATCATTGAGAA ATCGTAGAAAGGTTATACCTTCACATCTCCACTTTCAGTCAGGAGGATATTTGCCGCTGCAAAA TATCACAGAATGTGTATATTAGAATGTGTGGTATACTTCACAGGTTCACATTAGTAAAATAGGA AAGAAAATAAATGAGTCAAAGATCATCAATATATCAGGACTAATCAGTAGTCACACAATAGTGG GGTCATTCGTTTATGTTCAATCAAATGCTATGAAAATACTAGCATCAAATGTATTGGTATGTTA CTTCTGTGTAGTGAAGAACAATTTAAATGTGCAACCCATACAACTGCCTGCTAACTCTCCATTA TCTTTTCATACAGACTCTAATGGTAGACCTATTTGACCCTATTTGACAGTGATCTTCCACATCA TTGTACCTGTGGAAGTGTGGAAAGGCATTGCAGACTTTCCAGAACTCAATCTTATGTTTAAGAT TATGCAAGGTTTGCTGGGGTTTTGTTCTCCCTCCATATCCACCAGCAACACTAAACTTTTCAAT TCATCTAGCGCCAATACTAATGCAATGGCAAATGAAGGTTTTCACCAGCCCTTACATCTTAATC TGCCAGATTTTAATTAAACAACAGCAAATATCTAATTGTTCTGTGTATCTGAGGATTCCCAAGT TAGTGAAAAAGAAACTTCACTTTAATAAAAAAACAGTGAGTGACGATTTATCTTGATAGAAAAT AATAGGTGTAAGTATGCAACGTAACAATAGTGGATGGGGTGAGAAAGAGGTGTCGCCTCTTGAA CCACATCCTACTAAACCATCCAACTTAAAGATGGGATAAATCAAGAATAATAGTATAATACTAG TAACATGATATAATTGACCTTTATCAACATCTTTTGAGTTCTGACAATAAAGATAAATGTGCAA TTGGTATTAACGCATTAGTTCTCAAAGAAAGGAGTGTTAGCCCTGTCCAGAAAGCCTCCTTTAT AATGGTTTTGTGGATATTGTACTTGGTGGACAGGACAGTAGATATGAGGGTTATCTGGCCCGTA GTTATTAGGAACACAGCACAACCAACCAGGGGTTGAGGTACTGCAGTCAGAATATACCAGTATG ATAACAAATGCTGTACAAAGGGAGGTATAGACTGTAGAGTTCTTCAGGACATGTTACATGGCCC CAATTTTTCCAGTTTGATGACCCAAATGCTTTATTAAATGCTCATATTCAATATAAATCCAGCA ATAAAAAGGGAAAGGGAGAGAAATAATCAAGACCTTTAATGTCACGGTGAATCTTTCCTTCTGA ATGAAGATATTCAACTGCATGTAACAAGTCCCTCAGAATGCATGCAATAGACAATTCATCTAGA GGAGGGCCAGTTTGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.224322759

Conservation Information
Conserved circRNAs	NA
PMCS	0.224322759

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19264891-19261741(+)
19263434-19264914(-)
						
						Potential amino acid sequence
						
							MHAIDNSSRGGPVWSLKERLHPL*(+)
MSRRKTFVGTPFWMAPEVIQNSDGYNEKADIWSLGITAIEMAKGEPPLADIHPMRVLFMIPREN
PPQLDEHFSKPMKEFVSLCLKKNPAERLSAKDLLKHRFVRNARKSPKLLDRIRERPKFPVKSSA
DATQNGRTHVEEDDGTGTIKVERATRDVVSPSSSKLALL*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19264891-19261741(+) 19263434-19264914(-)
Potential amino acid sequence	MHAIDNSSRGGPVWSLKERLHPL(+) MSRRKTFVGTPFWMAPEVIQNSDGYNEKADIWSLGITAIEMAKGEPPLADIHPMRVLFMIPREN PPQLDEHFSKPMKEFVSLCLKKNPAERLSAKDLLKHRFVRNARKSPKLLDRIRERPKFPVKSSA DATQNGRTHVEEDDGTGTIKVERATRDVVSPSSSKLALL(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0507300_circ_g.3

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