Plant Circular RNA Database

Detail information of Os02g0639000_circ_g.8

			
						 General Information
					
						CircRNA Name
						Os02g0639000_circ_g.8
					
						ID in PlantcircBase
						osa_circ_015737
					
						Alias
						Os02circ19859/Os_ciR1423
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 25632478-25634605  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os02g0639000						
					
						Parent gene annotation
						
							Double stranded RNA binding domain (dsRBD) containing protein, R
egulation of stress responses (Os02t0639000-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0639000_circ_g.1 Os02g0639000_circ_g.2 Os02g0639000_circ_g.3 Os02g0639000_circ_g.4 Os02g0639000_circ_g.5 Os02g0639000_circ_g.6 Os02g0639000_circ_g.7 Os02g0639000_circ_g.9 Os02g0639000_circ_g.10 Os02g0639000_circ_g.11 						
					
						Support reads
						2/16/4
					
						Tissues
						leaf and panicle/root/shoot, 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  
						
							GT-AG							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
						Os02t0639000-01:7

General Information
CircRNA Name	Os02g0639000_circ_g.8
ID in PlantcircBase	osa_circ_015737
Alias	Os02circ19859/Os_ciR1423
Organism	Oryza sativa
Position	chr2: 25632478-25634605 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os02g0639000
Parent gene annotation	Double stranded RNA binding domain (dsRBD) containing protein, R egulation of stress responses (Os02t0639000-01)
Parent gene strand	+
Alternative splicing	Os02g0639000_circ_g.1 Os02g0639000_circ_g.2 Os02g0639000_circ_g.3 Os02g0639000_circ_g.4 Os02g0639000_circ_g.5 Os02g0639000_circ_g.6 Os02g0639000_circ_g.7 Os02g0639000_circ_g.9 Os02g0639000_circ_g.10 Os02g0639000_circ_g.11
Support reads	2/16/4
Tissues	leaf and panicle/root/shoot, 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	GT-AG 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	Os02t0639000-01:7

			
						 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  
						
							TGTTTGTATGTTTGATCACTCTGTAGGCTGCTGATGAAGCTCTTGGAATGTTGAGATCCATGCT
TGGTCCACTTGCTCAGAAACGGTCCAGTTCTCCAAGgagaggagctagcaactcggcatgtttc
ttcaagtcagagaaacaaccagatagtaccaggacaacactttgctcggcatgcagggagctct
gctggcat

									
								

					

						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: 129
Transcript exons: 25632478-25632549,25634549-25634605
GAGAGGAGCTAGCAACTCGGCATGTTTCTTCAAGTCAGAGAAACAACCAGATAGTACCAGGACA
ACACTTTGTGGAATGTTGAGATCCATGCTTGGTCCACTTGCTCAGAAACGGTCCAGTTCTCCAA
G
Transcript length: 712
Transcript exons: 25632478-25632611,25632682-25632735,25632883-25632979,25
633514-25633719,25633794-25633874,25634050-25634115,2563
4532-25634605
GAGAGGAGCTAGCAACTCGGCATGTTTCTTCAAGTCAGAGAAACAACCAGATAGTACCAGGACA
ACACTTTGCTCGGCATGCAGGGAGCTCTGCTGGCATACTAGAGGAGATTGCTATGAAGTGTGGT
TCTAAGGTGGAGTACAGGTCAGCACTATGTGATACTGCGGATTTACAGTTCTCAATCGAGGTTT
GGATTGTTGGAGAAAAAGTAGGCGAAGGCATTGGCAGGACAAGGAAAGAAGCACAGTGTCAAGC
TGCAGAAATCTCATTAAGAAATTTAGCTAATAAATATCTGTCATCTGATCCAAATAAGATGACT
GATATGAAAGAAAATGGTTTTGGTAGCAATACAAACATTTTTGGATACCCTGGAAATAGTAGGG
ACGATGTGTTACCAATTGCAAGTACTTCAGAAGAAACTCGCTTTGTGAAGATGGGGGAGAACAA
TTCCAGAAAAGCAGGAGGTTCTATTGCTGCTCTCAAGGAACTTTGCACAGCTGAGGGATATAAC
TTAGTTTTTCAAGCTCGGACATCTCCTGATAGTTCAGTAGGCAAAGAAGCTTATGCTGAGGTAG
AAGTTTGTGGGCAAATTCTAGGCAACGGAGTGGGAATAACATGGGAAGATGCTAAGCTTCAGGC
TGCTGATGAAGCTCTTGGAATGTTGAGATCCATGCTTGGTCCACTTGCTCAGAAACGGTCCAGT
TCTCCAAG
						
					

						Genomic sequence
						
							GAGAGGAGCTAGCAACTCGGCATGTTTCTTCAAGTCAGAGAAACAACCAGATAGTACCAGGACA
ACACTTTGCTCGGCATGCAGGGAGCTCTGCTGGCATACTAGAGGAGATTGCTATGAAGTGTGGT
TCTAAGGTAGTTTTGAACATTCAGGTCGCACCATACAATCCAGTTTATAATCATTGACACTTTT
CATTGTTTTTAGGTGGAGTACAGGTCAGCACTATGTGATACTGCGGATTTACAGTTCTCAATCG
AGGTAGATTGGAACTTCTATTCAATGTTTATTATTGGTATCTCTGCAGTAAATTTAGTTCCAAA
AAATCAGAGCTCCTCTCCTGGACTTGTTGAAAATTGTAAGCTTACCTTATTTATATCCCTTTCT
TATGTCTATTACCTCTTTCAGGTTTGGATTGTTGGAGAAAAAGTAGGCGAAGGCATTGGCAGGA
CAAGGAAAGAAGCACAGTGTCAAGCTGCAGAAATCTCATTAAGAAATTTAGCTAGTAAGTTTGT
TTTTCCTGCTTAGTCTACAGCCTATTAGTTTCCTTACTGCACATATAACATAATGTTTTGTGCC
ATCAATCTTGTCGCAACCAAGACATTCGTTTTAAATAAAAGATTGACATGTTTACTTGGGGCAT
AGGGTGTGTTTTTTCAAAATTTGGGCACATAGCGCATTTCAGCTATTGCCACTTAATAGTGCTG
GATTATTCTGTTTACATATGTTTCATTGAAGAATACTTAATCAGGTTATCATAAATCAGAGCCT
GTTGACAATATACGGAGGTTCGAGTAGATTCATGAAGCTTACTGTGTAGAATGCTGGAATTTTC
ATGGCATTCAAATTTGCCTGCTTGCATGTTGTCAGTTTTCCTTTTGGTTTCTGGGATGAAAACA
TCTGGATGAAGCTATATTTCTGTAATTGATAGGTTGAAAAAAGCAAAACATTGTAACTCTTTTA
TTGTTTTGCGTCTTTTTGGAACTTCTTGTTTTATACAATATTTTGTATTGATTTGCCATGCCAA
CAATACTTGCAGATAAATATCTGTCATCTGATCCAAATAAGATGACTGATATGAAAGAAAATGG
TTTTGGTAGCAATACAAACATTTTTGGATACCCTGGAAATAGTAGGGACGATGTGTTACCAATT
GCAAGTACTTCAGAAGAAACTCGCTTTGTGAAGATGGGGGAGAACAATTCCAGAAAAGCAGGAG
GTTCTATTGCTGCTCTCAAGGAACTTGTAAGTATCTTAGATTGTTGGTTGTTTGACACAGCTCT
TTTTCAATTAATAACATAGTTGAAAATGTGTTGCAGTGCACAGCTGAGGGATATAACTTAGTTT
TTCAAGCTCGGACATCTCCTGATAGTTCAGTAGGCAAAGAAGCTTATGCTGAGGTCAGTTAGCA
ACTATTTCCTCATTATTTTACTTAAACAAGTTGTTATAATGCTGGGGAGAATGTCTAGGATCAT
GCCTTTTTCTCAGTATATGTGTATGGTGCACAACGATGTATTAGCAGTATTGTTGTGGGACCTG
CAGCATCATAATTGTGTCGCTAACTTTGGCTTTCAGGTAGAAGTTTGTGGGCAAATTCTAGGCA
ACGGAGTGGGAATAACATGGGAAGATGCTAAGCTTCAGGTTATAAGCAGCCCTCGTACTTAAGC
AACTGTTTTCCTTTGTTGCTTTAGTGTTTCCTACTTATGGAAGAATAAGATCATGAAGTGTGTT
CAAAGATATTTCTATTTTGCCTTTTGACTGACTGACCGATGTGGAAGTCAGGAGGGTTTTGTTC
GTCTTTTCAGTTTACGTAATAACTTGAGTTATGTTTCACATTCAATTCTTGTTCCACTAAACCA
TTTCTAGCTTTTGGAAATGGAGCCAATTAATAATGTGGTTCTGACTTTGGAGTACATATTTTTT
GTGTGTCTGAGGTGTGGGGAATAAAGGTTGTAAGTGGGATTTTTTTTTCTTGTTTTTACGTGCA
AGGGACTACTTATAAAGGATAAACATGTTGTATATCTGAATTGATGTTTGTATGTTTGATCACT
CTGTAGGCTGCTGATGAAGCTCTTGGAATGTTGAGATCCATGCTTGGTCCACTTGCTCAGAAAC
GGTCCAGTTCTCCAAG
						
					

			
		

Sequences
Splice junction sequence	TGTTTGTATGTTTGATCACTCTGTAGGCTGCTGATGAAGCTCTTGGAATGTTGAGATCCATGCT TGGTCCACTTGCTCAGAAACGGTCCAGTTCTCCAAGgagaggagctagcaactcggcatgtttc ttcaagtcagagaaacaaccagatagtaccaggacaacactttgctcggcatgcagggagctct gctggcat
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: 129 Transcript exons: 25632478-25632549,25634549-25634605 GAGAGGAGCTAGCAACTCGGCATGTTTCTTCAAGTCAGAGAAACAACCAGATAGTACCAGGACA ACACTTTGTGGAATGTTGAGATCCATGCTTGGTCCACTTGCTCAGAAACGGTCCAGTTCTCCAA G Transcript length: 712 Transcript exons: 25632478-25632611,25632682-25632735,25632883-25632979,25 633514-25633719,25633794-25633874,25634050-25634115,2563 4532-25634605 GAGAGGAGCTAGCAACTCGGCATGTTTCTTCAAGTCAGAGAAACAACCAGATAGTACCAGGACA ACACTTTGCTCGGCATGCAGGGAGCTCTGCTGGCATACTAGAGGAGATTGCTATGAAGTGTGGT TCTAAGGTGGAGTACAGGTCAGCACTATGTGATACTGCGGATTTACAGTTCTCAATCGAGGTTT GGATTGTTGGAGAAAAAGTAGGCGAAGGCATTGGCAGGACAAGGAAAGAAGCACAGTGTCAAGC TGCAGAAATCTCATTAAGAAATTTAGCTAATAAATATCTGTCATCTGATCCAAATAAGATGACT GATATGAAAGAAAATGGTTTTGGTAGCAATACAAACATTTTTGGATACCCTGGAAATAGTAGGG ACGATGTGTTACCAATTGCAAGTACTTCAGAAGAAACTCGCTTTGTGAAGATGGGGGAGAACAA TTCCAGAAAAGCAGGAGGTTCTATTGCTGCTCTCAAGGAACTTTGCACAGCTGAGGGATATAAC TTAGTTTTTCAAGCTCGGACATCTCCTGATAGTTCAGTAGGCAAAGAAGCTTATGCTGAGGTAG AAGTTTGTGGGCAAATTCTAGGCAACGGAGTGGGAATAACATGGGAAGATGCTAAGCTTCAGGC TGCTGATGAAGCTCTTGGAATGTTGAGATCCATGCTTGGTCCACTTGCTCAGAAACGGTCCAGT TCTCCAAG
Genomic sequence	GAGAGGAGCTAGCAACTCGGCATGTTTCTTCAAGTCAGAGAAACAACCAGATAGTACCAGGACA ACACTTTGCTCGGCATGCAGGGAGCTCTGCTGGCATACTAGAGGAGATTGCTATGAAGTGTGGT TCTAAGGTAGTTTTGAACATTCAGGTCGCACCATACAATCCAGTTTATAATCATTGACACTTTT CATTGTTTTTAGGTGGAGTACAGGTCAGCACTATGTGATACTGCGGATTTACAGTTCTCAATCG AGGTAGATTGGAACTTCTATTCAATGTTTATTATTGGTATCTCTGCAGTAAATTTAGTTCCAAA AAATCAGAGCTCCTCTCCTGGACTTGTTGAAAATTGTAAGCTTACCTTATTTATATCCCTTTCT TATGTCTATTACCTCTTTCAGGTTTGGATTGTTGGAGAAAAAGTAGGCGAAGGCATTGGCAGGA CAAGGAAAGAAGCACAGTGTCAAGCTGCAGAAATCTCATTAAGAAATTTAGCTAGTAAGTTTGT TTTTCCTGCTTAGTCTACAGCCTATTAGTTTCCTTACTGCACATATAACATAATGTTTTGTGCC ATCAATCTTGTCGCAACCAAGACATTCGTTTTAAATAAAAGATTGACATGTTTACTTGGGGCAT AGGGTGTGTTTTTTCAAAATTTGGGCACATAGCGCATTTCAGCTATTGCCACTTAATAGTGCTG GATTATTCTGTTTACATATGTTTCATTGAAGAATACTTAATCAGGTTATCATAAATCAGAGCCT GTTGACAATATACGGAGGTTCGAGTAGATTCATGAAGCTTACTGTGTAGAATGCTGGAATTTTC ATGGCATTCAAATTTGCCTGCTTGCATGTTGTCAGTTTTCCTTTTGGTTTCTGGGATGAAAACA TCTGGATGAAGCTATATTTCTGTAATTGATAGGTTGAAAAAAGCAAAACATTGTAACTCTTTTA TTGTTTTGCGTCTTTTTGGAACTTCTTGTTTTATACAATATTTTGTATTGATTTGCCATGCCAA CAATACTTGCAGATAAATATCTGTCATCTGATCCAAATAAGATGACTGATATGAAAGAAAATGG TTTTGGTAGCAATACAAACATTTTTGGATACCCTGGAAATAGTAGGGACGATGTGTTACCAATT GCAAGTACTTCAGAAGAAACTCGCTTTGTGAAGATGGGGGAGAACAATTCCAGAAAAGCAGGAG GTTCTATTGCTGCTCTCAAGGAACTTGTAAGTATCTTAGATTGTTGGTTGTTTGACACAGCTCT TTTTCAATTAATAACATAGTTGAAAATGTGTTGCAGTGCACAGCTGAGGGATATAACTTAGTTT TTCAAGCTCGGACATCTCCTGATAGTTCAGTAGGCAAAGAAGCTTATGCTGAGGTCAGTTAGCA ACTATTTCCTCATTATTTTACTTAAACAAGTTGTTATAATGCTGGGGAGAATGTCTAGGATCAT GCCTTTTTCTCAGTATATGTGTATGGTGCACAACGATGTATTAGCAGTATTGTTGTGGGACCTG CAGCATCATAATTGTGTCGCTAACTTTGGCTTTCAGGTAGAAGTTTGTGGGCAAATTCTAGGCA ACGGAGTGGGAATAACATGGGAAGATGCTAAGCTTCAGGTTATAAGCAGCCCTCGTACTTAAGC AACTGTTTTCCTTTGTTGCTTTAGTGTTTCCTACTTATGGAAGAATAAGATCATGAAGTGTGTT CAAAGATATTTCTATTTTGCCTTTTGACTGACTGACCGATGTGGAAGTCAGGAGGGTTTTGTTC GTCTTTTCAGTTTACGTAATAACTTGAGTTATGTTTCACATTCAATTCTTGTTCCACTAAACCA TTTCTAGCTTTTGGAAATGGAGCCAATTAATAATGTGGTTCTGACTTTGGAGTACATATTTTTT GTGTGTCTGAGGTGTGGGGAATAAAGGTTGTAAGTGGGATTTTTTTTTCTTGTTTTTACGTGCA AGGGACTACTTATAAAGGATAAACATGTTGTATATCTGAATTGATGTTTGTATGTTTGATCACT CTGTAGGCTGCTGATGAAGCTCTTGGAATGTTGAGATCCATGCTTGGTCCACTTGCTCAGAAAC GGTCCAGTTCTCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.348232068

Conservation Information
Conserved circRNAs	NA
PMCS	0.348232068

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							25632595-25632607(+)
						
						Potential amino acid sequence
						
							MKCGSKVEYRSALCDTADLQFSIEVWIVGEKVGEGIGRTRKEAQCQAAEISLRNLANKYLSSDP
NKMTDMKENGFGSNTNIFGYPGNSRDDVLPIASTSEETRFVKMGENNSRKAGGSIAALKELCTA
EGYNLVFQARTSPDSSVGKEAYAEVEVCGQILGNGVGITWEDAKLQAADEALGMLRSMLGPLAQ
KRSSSPRRGASNSACFFKSEKQPDSTRTTLCSACRELCWHTRGDCYEVWF*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	25632595-25632607(+)
Potential amino acid sequence	MKCGSKVEYRSALCDTADLQFSIEVWIVGEKVGEGIGRTRKEAQCQAAEISLRNLANKYLSSDP NKMTDMKENGFGSNTNIFGYPGNSRDDVLPIASTSEETRFVKMGENNSRKAGGSIAALKELCTA EGYNLVFQARTSPDSSVGKEAYAEVEVCGQILGNGVGITWEDAKLQAADEALGMLRSMLGPLAQ KRSSSPRRGASNSACFFKSEKQPDSTRTTLCSACRELCWHTRGDCYEVWF*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of Os02g0639000_circ_g.8

Address

Any questions?

Supported by