Plant Circular RNA Database

Detail information of Os07g0123700_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os07g0123700_circ_g.4
					
						ID in PlantcircBase
						osa_circ_032663
					
						Alias
						Os07circ00808/Os_ciR1302
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 1229877-1230351  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, find_circ
					
						Parent gene
						
							Os07g0123601						
					
						Parent gene annotation
						
							Hypothetical gene. (Os07t0123601-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0123700_circ_g.1 Os07g0123700_circ_g.2 Os07g0123700_circ_g.3 Os07g0123700_circ_g.5 Os07g0123700_circ_g.6 Os07g0123700_circ_g.7 Os07g0123700_circ_g.8 Os07g0123700_circ_g.9 						
					
						Support reads
						2/17/2
					
						Tissues
						leaf/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  
						
							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
						Os07t0123700-00:2
Os07t0123601-01:2
Os07t0123700-00:2

General Information
CircRNA Name	Os07g0123700_circ_g.4
ID in PlantcircBase	osa_circ_032663
Alias	Os07circ00808/Os_ciR1302
Organism	Oryza sativa
Position	chr7: 1229877-1230351 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, find_circ
Parent gene	Os07g0123601
Parent gene annotation	Hypothetical gene. (Os07t0123601-01)
Parent gene strand	+
Alternative splicing	Os07g0123700_circ_g.1 Os07g0123700_circ_g.2 Os07g0123700_circ_g.3 Os07g0123700_circ_g.5 Os07g0123700_circ_g.6 Os07g0123700_circ_g.7 Os07g0123700_circ_g.8 Os07g0123700_circ_g.9
Support reads	2/17/2
Tissues	leaf/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	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	Os07t0123700-00:2 Os07t0123601-01:2 Os07t0123700-00:2

			
						 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  
						
							GGCTTGTCAAATAAGTTAGTAACTGCTTTAAGGGTTGTAAGCACATTTGGTGGCTGCACAGGTG
GCGTTACAACCTTATGGAAAGTCTCGGCAAGTACATttgagtagaagtgtggaatatgccaggt
gagcattcttgctaaaagttgtcttacagcttgatactgaatcaataatctgaaattagcaaac
aaaaaata

						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: 214
Transcript exons: 1229877-1229953,1230215-1230351
TTGAGTAGAAGTGTGGAATATGCCAGGTGAGCATTCTTGCTAAAAGTTGTCTTACAGCTTGATA
CTGAATCAATAATCTCCATGCCATGGATTCTCAACCATTGGTGCAAGCATGGCTTGTCAAATAA
GTTAGTAACTGCTTTAAGGGTTGTAAGCACATTTGGTGGCTGCACAGGTGGCGTTACAACCTTA
TGGAAAGTCTCGGCAAGTACAT
						
						Genomic sequence
						
							TTGAGTAGAAGTGTGGAATATGCCAGGTGAGCATTCTTGCTAAAAGTTGTCTTACAGCTTGATA
CTGAATCAATAATCTGAAATTAGCAAACAAAAAATATCAGTCTCCTAAAAATAGATTAAATAAT
AATTCCTAGAGTCTGAGCAGAAAAACAACAAACTCTTGTCAATCTAAGTGTCTACCAAAGCTAG
TTATGTTTTGCGGACTAGTGATCCCACAAAGGAGACGCTTGCATTGGTCACTAGATGTTGTGAT
TATAATACAACAAATAAAATGAACTAATGGTTACATTTATGCATTACAGAACAAAATGACCGTA
TGTAGTTCAAGAACTGACCTCCATGCCATGGATTCTCAACCATTGGTGCAAGCATGGCTTGTCA
AATAAGTTAGTAACTGCTTTAAGGGTTGTAAGCACATTTGGTGGCTGCACAGGTGGCGTTACAA
CCTTATGGAAAGTCTCGGCAAGTACAT

Sequences
Splice junction sequence	GGCTTGTCAAATAAGTTAGTAACTGCTTTAAGGGTTGTAAGCACATTTGGTGGCTGCACAGGTG GCGTTACAACCTTATGGAAAGTCTCGGCAAGTACATttgagtagaagtgtggaatatgccaggt gagcattcttgctaaaagttgtcttacagcttgatactgaatcaataatctgaaattagcaaac aaaaaata
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: 214 Transcript exons: 1229877-1229953,1230215-1230351 TTGAGTAGAAGTGTGGAATATGCCAGGTGAGCATTCTTGCTAAAAGTTGTCTTACAGCTTGATA CTGAATCAATAATCTCCATGCCATGGATTCTCAACCATTGGTGCAAGCATGGCTTGTCAAATAA GTTAGTAACTGCTTTAAGGGTTGTAAGCACATTTGGTGGCTGCACAGGTGGCGTTACAACCTTA TGGAAAGTCTCGGCAAGTACAT
Genomic sequence	TTGAGTAGAAGTGTGGAATATGCCAGGTGAGCATTCTTGCTAAAAGTTGTCTTACAGCTTGATA CTGAATCAATAATCTGAAATTAGCAAACAAAAAATATCAGTCTCCTAAAAATAGATTAAATAAT AATTCCTAGAGTCTGAGCAGAAAAACAACAAACTCTTGTCAATCTAAGTGTCTACCAAAGCTAG TTATGTTTTGCGGACTAGTGATCCCACAAAGGAGACGCTTGCATTGGTCACTAGATGTTGTGAT TATAATACAACAAATAAAATGAACTAATGGTTACATTTATGCATTACAGAACAAAATGACCGTA TGTAGTTCAAGAACTGACCTCCATGCCATGGATTCTCAACCATTGGTGCAAGCATGGCTTGTCA AATAAGTTAGTAACTGCTTTAAGGGTTGTAAGCACATTTGGTGGCTGCACAGGTGGCGTTACAA CCTTATGGAAAGTCTCGGCAAGTACAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.374647228

Conservation Information
Conserved circRNAs	NA
PMCS	0.374647228

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1230220-1229881(+)
1230227-1230329(-)
1230222-1230329(-)
						
						Potential amino acid sequence
						
							MPWILNHWCKHGLSNKLVTALRVVSTFGGCTGGVTTLWKVSASTFE*(+)
MAWRLLIQYQAVRQLLARMLTWHIPHFYSNVLAETFHKVVTPPVQPPNVLTTLKAVTNLFDKPC
LHQWLRIHGMEIIDSVSSCKTTFSKNAHLAYSTLLLKCTCRDFP*(-)
MEIIDSVSSCKTTFSKNAHLAYSTLLLKCTCRDFP*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1230220-1229881(+) 1230227-1230329(-) 1230222-1230329(-)
Potential amino acid sequence	MPWILNHWCKHGLSNKLVTALRVVSTFGGCTGGVTTLWKVSASTFE(+) MAWRLLIQYQAVRQLLARMLTWHIPHFYSNVLAETFHKVVTPPVQPPNVLTTLKAVTNLFDKPC LHQWLRIHGMEIIDSVSSCKTTFSKNAHLAYSTLLLKCTCRDFP(-) MEIIDSVSSCKTTFSKNAHLAYSTLLLKCTCRDFP*(-)
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 Os07g0123700_circ_g.4

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