Plant Circular RNA Database

Detail information of Os07g0695100_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os07g0695100_circ_g.2
					
						ID in PlantcircBase
						osa_circ_035490
					
						Alias
						Os07circ21701
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 29623154-29623862  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl
					
						Parent gene
						
							Os07g0695100						
					
						Parent gene annotation
						
							Pseudo response regulator, Heading date, long-day repression (Os
07t0695100-01);Similar to Two-component response regulator-like 
PRR37. (Os07t0695100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os07g0695100_circ_g.3 						
					
						Support reads
						2/1
					
						Tissues
						leaf/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
						Os07t0695100-02:3
Os07t0695100-01:3

General Information
CircRNA Name	Os07g0695100_circ_g.2
ID in PlantcircBase	osa_circ_035490
Alias	Os07circ21701
Organism	Oryza sativa
Position	chr7: 29623154-29623862 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl
Parent gene	Os07g0695100
Parent gene annotation	Pseudo response regulator, Heading date, long-day repression (Os 07t0695100-01);Similar to Two-component response regulator-like PRR37. (Os07t0695100-02)
Parent gene strand	+
Alternative splicing	Os07g0695100_circ_g.3
Support reads	2/1
Tissues	leaf/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	Os07t0695100-02:3 Os07t0695100-01:3

			
						 Experimental Information
					
						Sanger sequencing for BSS  
						
							Yes							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   
						
							F: AGTGGCAGTGGAAGTGAAAGT
 R: TGTGGTTCATGATCCTACTCAA
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	Yes 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	F: AGTGGCAGTGGAAGTGAAAGT R: TGTGGTTCATGATCCTACTCAA 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  
						
							ATCCAATAATAACAATGGCAGCAATGACGATGATGACGACGATGGTGTAATCATGGGACTTAAT
GCAAGAGATGGCAGTGATAACGGCAGTGGCACTCAAtcatccctgctgaaaatggccagcaagc
atggacatatctagaagatatgcaaaacagcattgatcttgttttgacagaggttgttatgcct
ggtgtatc

						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: 464
Transcript exons: 29623154-29623315,29623426-29623559,29623695-29623862
TCATCCCTGCTGAAAATGGCCAGCAAGCATGGACATATCTAGAAGATATGCAAAACAGCATTGA
TCTTGTTTTGACAGAGGTTGTTATGCCTGGTGTATCTGGAATTTCTCTATTGAGTAGGATCATG
AACCACAATATTTGCAAGAATATTCCAGTGATTATGATGTCTTCAAATGATGCTATGGGTACAG
TTTTTAAGTGTTTGTCAAAGGGCGCTGTTGACTTCTTAGTCAAGCCCATACGTAAGAATGAACT
TAAGAACCTATGGCAGCATGTGTGGAGACGGTGCCACAGCTCCAGTGGCAGTGGAAGTGAAAGT
GGCATTCAGACACAAAAGTGTGCCAAATCAAAAAGTGGGGATGAATCCAATAATAACAATGGCA
GCAATGACGATGATGACGACGATGGTGTAATCATGGGACTTAATGCAAGAGATGGCAGTGATAA
CGGCAGTGGCACTCAA
						
						Genomic sequence
						
							TCATCCCTGCTGAAAATGGCCAGCAAGCATGGACATATCTAGAAGATATGCAAAACAGCATTGA
TCTTGTTTTGACAGAGGTTGTTATGCCTGGTGTATCTGGAATTTCTCTATTGAGTAGGATCATG
AACCACAATATTTGCAAGAATATTCCAGTGATTAGTAAGTAGCTTTCCTCAACTCTACAGTACA
ATTCTTGTACAAAATGTTGCCCTTGTCATTTATTTACTTTCTATGCTTTTAGCTGCTACACTGT
TGTGGTTTATGTGCAGTGATGTCTTCAAATGATGCTATGGGTACAGTTTTTAAGTGTTTGTCAA
AGGGCGCTGTTGACTTCTTAGTCAAGCCCATACGTAAGAATGAACTTAAGAACCTATGGCAGCA
TGTGTGGAGACGGTGCCACAGCGTAAGTTGTTGTTGGTCCAGTTTTTCTTATATATTAGATGTT
CAGGCAAATCCATCAAGTACTGACTGCTGCTTCACCATTTTATGGTTACAATATGTGATGACTC
TAAACTAAAGTTGTTATTTTCAAATTCAGTCCAGTGGCAGTGGAAGTGAAAGTGGCATTCAGAC
ACAAAAGTGTGCCAAATCAAAAAGTGGGGATGAATCCAATAATAACAATGGCAGCAATGACGAT
GATGACGACGATGGTGTAATCATGGGACTTAATGCAAGAGATGGCAGTGATAACGGCAGTGGCA
CTCAA

Sequences
Splice junction sequence	ATCCAATAATAACAATGGCAGCAATGACGATGATGACGACGATGGTGTAATCATGGGACTTAAT GCAAGAGATGGCAGTGATAACGGCAGTGGCACTCAAtcatccctgctgaaaatggccagcaagc atggacatatctagaagatatgcaaaacagcattgatcttgttttgacagaggttgttatgcct ggtgtatc
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: 464 Transcript exons: 29623154-29623315,29623426-29623559,29623695-29623862 TCATCCCTGCTGAAAATGGCCAGCAAGCATGGACATATCTAGAAGATATGCAAAACAGCATTGA TCTTGTTTTGACAGAGGTTGTTATGCCTGGTGTATCTGGAATTTCTCTATTGAGTAGGATCATG AACCACAATATTTGCAAGAATATTCCAGTGATTATGATGTCTTCAAATGATGCTATGGGTACAG TTTTTAAGTGTTTGTCAAAGGGCGCTGTTGACTTCTTAGTCAAGCCCATACGTAAGAATGAACT TAAGAACCTATGGCAGCATGTGTGGAGACGGTGCCACAGCTCCAGTGGCAGTGGAAGTGAAAGT GGCATTCAGACACAAAAGTGTGCCAAATCAAAAAGTGGGGATGAATCCAATAATAACAATGGCA GCAATGACGATGATGACGACGATGGTGTAATCATGGGACTTAATGCAAGAGATGGCAGTGATAA CGGCAGTGGCACTCAA
Genomic sequence	TCATCCCTGCTGAAAATGGCCAGCAAGCATGGACATATCTAGAAGATATGCAAAACAGCATTGA TCTTGTTTTGACAGAGGTTGTTATGCCTGGTGTATCTGGAATTTCTCTATTGAGTAGGATCATG AACCACAATATTTGCAAGAATATTCCAGTGATTAGTAAGTAGCTTTCCTCAACTCTACAGTACA ATTCTTGTACAAAATGTTGCCCTTGTCATTTATTTACTTTCTATGCTTTTAGCTGCTACACTGT TGTGGTTTATGTGCAGTGATGTCTTCAAATGATGCTATGGGTACAGTTTTTAAGTGTTTGTCAA AGGGCGCTGTTGACTTCTTAGTCAAGCCCATACGTAAGAATGAACTTAAGAACCTATGGCAGCA TGTGTGGAGACGGTGCCACAGCGTAAGTTGTTGTTGGTCCAGTTTTTCTTATATATTAGATGTT CAGGCAAATCCATCAAGTACTGACTGCTGCTTCACCATTTTATGGTTACAATATGTGATGACTC TAAACTAAAGTTGTTATTTTCAAATTCAGTCCAGTGGCAGTGGAAGTGAAAGTGGCATTCAGAC ACAAAAGTGTGCCAAATCAAAAAGTGGGGATGAATCCAATAATAACAATGGCAGCAATGACGAT GATGACGACGATGGTGTAATCATGGGACTTAATGCAAGAGATGGCAGTGATAACGGCAGTGGCA CTCAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_007472* osi_circ_017535 						
					
						PMCS
						0.337318253

Conservation Information
Conserved circRNAs	osi_circ_007472* osi_circ_017535
PMCS	0.337318253

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29623202-29623192(+)
29623725-29623824(-)
						
						Potential amino acid sequence
						
							MQNSIDLVLTEVVMPGVSGISLLSRIMNHNICKNIPVIMMSSNDAMGTVFKCLSKGAVDFLVKP
IRKNELKNLWQHVWRRCHSSSGSGSESGIQTQKCAKSKSGDESNNNNGSNDDDDDDGVIMGLNA
RDGSDNGSGTQSSLLKMASKHGHI*(+)
MPLSLPLPLELWHRLHTCCHRFLSSFLRMGLTKKSTAPFDKHLKTVPIASFEDIIITGIFLQIL
WFMILLNREIPDTPGITTSVKTRSMLFCISSRYVHACWPFSAGMIECHCRYHCHLLH*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29623202-29623192(+) 29623725-29623824(-)
Potential amino acid sequence	MQNSIDLVLTEVVMPGVSGISLLSRIMNHNICKNIPVIMMSSNDAMGTVFKCLSKGAVDFLVKP IRKNELKNLWQHVWRRCHSSSGSGSESGIQTQKCAKSKSGDESNNNNGSNDDDDDDGVIMGLNA RDGSDNGSGTQSSLLKMASKHGHI(+) MPLSLPLPLELWHRLHTCCHRFLSSFLRMGLTKKSTAPFDKHLKTVPIASFEDIIITGIFLQIL WFMILLNREIPDTPGITTSVKTRSMLFCISSRYVHACWPFSAGMIECHCRYHCHLLH(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os07g0695100_circ_g.2

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