Plant Circular RNA Database

Detail information of Os11g0199700_circ_g.9

			
						 General Information
					
						CircRNA Name
						Os11g0199700_circ_g.9
					
						ID in PlantcircBase
						osa_circ_008776
					
						Alias
						Os11circ02499
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 5003722-5005876  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, SMALT, Segemehl, circseq_cup
					
						Parent gene
						
							Os11g0199700						
					
						Parent gene annotation
						
							Similar to VHS and GAT domain protein. (Os11t0199700-01);Similar
 to Seed protein B32E (Fragment). (Os11t0199700-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os11g0199700_circ_g.7 Os11g0199700_circ_g.8 						
					
						Support reads
						2/4/5
					
						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
						Os11t0199700-02:3
Os11t0199700-01:1

General Information
CircRNA Name	Os11g0199700_circ_g.9
ID in PlantcircBase	osa_circ_008776
Alias	Os11circ02499
Organism	Oryza sativa
Position	chr11: 5003722-5005876 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, SMALT, Segemehl, circseq_cup
Parent gene	Os11g0199700
Parent gene annotation	Similar to VHS and GAT domain protein. (Os11t0199700-01);Similar to Seed protein B32E (Fragment). (Os11t0199700-02)
Parent gene strand	-
Alternative splicing	Os11g0199700_circ_g.7 Os11g0199700_circ_g.8
Support reads	2/4/5
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	Os11t0199700-02:3 Os11t0199700-01:1

			
						 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  
						
							ACCGCCCAATCCGGCCCGATCAGCATGTCGCTCGTCGCCCTCTCCGCGCACGCCACGGCCGTCG
CCATTTTCCCCCTCTCACCACCAAAAACCCTAAATCctttttctttactatcttaaccatttca
cttaatatgtctcgctcaatgatttgctggtaaacaacatccccacagtttttgcttagagtct
ctagcacc

									
								

					

						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: 317
Transcript exons: 5003722-5003820,5004103-5004181,5005738-5005876
CTTTTTCTTTACTATCTTAACCATTTCACTTAATATGTCTCGCTCAATGATTTGCTGGTAAACA
ACATCCCCACAGTTTTTGCTTAGAGTCTCTAGCACATAAAGCGTCAGAATTTGCACTTTTGAAT
TCTTGTTTCCCAGGCGTTTCTTTAGGAGCTTGAGTGTATCCTTGGCTTGTCCGGGATCCATGTT
GATGATGTCGCAGAGCTCGATGTTCACCGCCCAATCCGGCCCGATCAGCATGTCGCTCGTCGCC
CTCTCCGCGCACGCCACGGCCGTCGCCATTTTCCCCCTCTCACCACCAAAAACCCTAAATC
						
					

						Genomic sequence
						
							CTTTTTCTTTACTATCTTAACCATTTCACTTAATATGTCTCGCTCAATGATTTGCTGGTAAACA
ACATCCCCACAGTTTTTGCTTAGAGTCTCTAGCACCTGAAAAGGAAGACAAACAAACAGAACAA
ATCAGCACATTAAACAAGACATGACTGTGCACATAGAAACTATGCTCTTTGTTTCCTAAATCTG
GAGGAAGCACAAGAAGTTTCCAAAATCTGGAAGAAGAACAAGAAATAACTTCTAAATTTGTGTA
GCTAGTGAAGACAGGTGAATTCTTAAATTTAGGAATGAATCGACCTAAAACTCACATTGTTAAA
ACAAAAAAATCAGAAGATAACACACTGAGTATCAATATACAAGGACTCTTGAAATACTCACATA
AAGCGTCAGAATTTGCACTTTTGAATTCTTGTTTCCCAGGCGTTTCTTTAGGAGCTTGAGTGTA
TCCTTGGCTTGTCTGTACTTCAGCAAACATTTATGAGCATGCTATAAAACATGACAAACCAAAA
GTTGTATGGGGACATTGAAAATAAATCCCAGAAAGTATTTAAGACGAAACAATTATGTCAACAA
TTCAATATACAAAACTCATTATGCAATGTGCATCACTCAACCATGAACCGAATTATCAACAAAT
TATAGCAAAATGTCTTAAATTAGTGTGGCATCACATACACAGATTTTAATGTTAGCAAATGCCA
CAGATTATAAAATGTAATCACTGCCTGGAGAGACATATAAACCATATTGGAAGTTGGAAGACTA
AAAGTTATTGAAGCTATATATCACACCAACGTACAGCAGAGTAGAGAAACAAAGTTTTTTTTTT
CTCTCGAACACGCAGGAGAGTTGCATATCATTATATTAAGATAAAAGAGTTAAAAAGGACTCAT
GCATGCCCATAACGGGAACAAAGGCTATAAGAACTTTCCAAAGAAACAACAAAAAACTACACCA
TGACTTAGCTTCATCTCTAACATCCTGCATGACGGAATTGAAATTAGCTGAAACCTCTCCAAAG
ACACATCCACCTATGTTTCCAAATCAACCAAGCCACCAACACAACTAATGAGTTAAAACCCTTG
CGATGTTGCTTAGCCACTTTCTGCAAAGCTTAAAGCCACCACATGGTGAAAACAGTGTCATCGG
GACCTTATCTAAGGTGCTGCAAGCCAACCAAGGACAAAACTGAGAACCATACACTTCTTGTGAA
CACACATAAAGTGAGCAAGTGCTGCACATTCTCCTCCTCTTGATTACACAATGGATATTGCCAA
GATGGTCAACACTGCGATGGGCCAATCGGTCAGCAGTCCAACAACGATTTAGCGAGGCTAACCA
CACAAAAGAATTGCAAAGAGGCCAAAGCTCAAGTTTTCCAAACTTCCTTCCACGGCTCAAATTA
CATGCCCCTGATGAGTTTTTTTTTTTGTGTGTGTGCTCTCATTGCTGATATCATCATGGCAAAA
AGTGATGTCATACCTAAACTGCACCTCAACAACAAATGACACCAACTCATCACCAAAATCAGTG
GCCTCCATGAGATTATAGCTCAACTAACCAATCACAAACTATCATCAATTATTGAGTTATTCTG
CTCTCCAAACCAACAACCGTACAACCTAAGATTCCAAATTCCTAATAAATTTGGAAGAAAAAGA
CTGAATATGCTTTTCCAAAAAAATACAAAACATATAGCAATAGACACAGAACAAACTAGCCAAA
ATCACAGATTCAATGCCTTATAGAAGCAGCACTAAAACCCTGCTAAATTTAACGATTTTATAAA
CAAGCCTAGGTTAAACGAGATACAACAAGCAAGCAAGATCACAACACATAAAATGTCAGAGATG
CCACGATAACCCTACTAAATCACTCACGGGTTGAACAACATAGAGAACTACCTAGGAATTCTCC
ATCCTACCATATGATAGCAATAACAATTACAAACAAATCAAAGAACCTAAACAAAAAGTCTCGA
ACAGAGGCATCATCGAGAGAGAGAAGCCAGACCCGGGATCCATGTTGATGATGTCGCAGAGCTC
GATGTTCACCGCCCAATCCGGCCCGATCAGCATGTCGCTCGTCGCCCTCTCCGCGCACGCCACG
GCCGTCGCCATTTTCCCCCTCTCACCACCAAAAACCCTAAATC
						
					

			
		

Sequences
Splice junction sequence	ACCGCCCAATCCGGCCCGATCAGCATGTCGCTCGTCGCCCTCTCCGCGCACGCCACGGCCGTCG CCATTTTCCCCCTCTCACCACCAAAAACCCTAAATCctttttctttactatcttaaccatttca cttaatatgtctcgctcaatgatttgctggtaaacaacatccccacagtttttgcttagagtct ctagcacc
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: 317 Transcript exons: 5003722-5003820,5004103-5004181,5005738-5005876 CTTTTTCTTTACTATCTTAACCATTTCACTTAATATGTCTCGCTCAATGATTTGCTGGTAAACA ACATCCCCACAGTTTTTGCTTAGAGTCTCTAGCACATAAAGCGTCAGAATTTGCACTTTTGAAT TCTTGTTTCCCAGGCGTTTCTTTAGGAGCTTGAGTGTATCCTTGGCTTGTCCGGGATCCATGTT GATGATGTCGCAGAGCTCGATGTTCACCGCCCAATCCGGCCCGATCAGCATGTCGCTCGTCGCC CTCTCCGCGCACGCCACGGCCGTCGCCATTTTCCCCCTCTCACCACCAAAAACCCTAAATC
Genomic sequence	CTTTTTCTTTACTATCTTAACCATTTCACTTAATATGTCTCGCTCAATGATTTGCTGGTAAACA ACATCCCCACAGTTTTTGCTTAGAGTCTCTAGCACCTGAAAAGGAAGACAAACAAACAGAACAA ATCAGCACATTAAACAAGACATGACTGTGCACATAGAAACTATGCTCTTTGTTTCCTAAATCTG GAGGAAGCACAAGAAGTTTCCAAAATCTGGAAGAAGAACAAGAAATAACTTCTAAATTTGTGTA GCTAGTGAAGACAGGTGAATTCTTAAATTTAGGAATGAATCGACCTAAAACTCACATTGTTAAA ACAAAAAAATCAGAAGATAACACACTGAGTATCAATATACAAGGACTCTTGAAATACTCACATA AAGCGTCAGAATTTGCACTTTTGAATTCTTGTTTCCCAGGCGTTTCTTTAGGAGCTTGAGTGTA TCCTTGGCTTGTCTGTACTTCAGCAAACATTTATGAGCATGCTATAAAACATGACAAACCAAAA GTTGTATGGGGACATTGAAAATAAATCCCAGAAAGTATTTAAGACGAAACAATTATGTCAACAA TTCAATATACAAAACTCATTATGCAATGTGCATCACTCAACCATGAACCGAATTATCAACAAAT TATAGCAAAATGTCTTAAATTAGTGTGGCATCACATACACAGATTTTAATGTTAGCAAATGCCA CAGATTATAAAATGTAATCACTGCCTGGAGAGACATATAAACCATATTGGAAGTTGGAAGACTA AAAGTTATTGAAGCTATATATCACACCAACGTACAGCAGAGTAGAGAAACAAAGTTTTTTTTTT CTCTCGAACACGCAGGAGAGTTGCATATCATTATATTAAGATAAAAGAGTTAAAAAGGACTCAT GCATGCCCATAACGGGAACAAAGGCTATAAGAACTTTCCAAAGAAACAACAAAAAACTACACCA TGACTTAGCTTCATCTCTAACATCCTGCATGACGGAATTGAAATTAGCTGAAACCTCTCCAAAG ACACATCCACCTATGTTTCCAAATCAACCAAGCCACCAACACAACTAATGAGTTAAAACCCTTG CGATGTTGCTTAGCCACTTTCTGCAAAGCTTAAAGCCACCACATGGTGAAAACAGTGTCATCGG GACCTTATCTAAGGTGCTGCAAGCCAACCAAGGACAAAACTGAGAACCATACACTTCTTGTGAA CACACATAAAGTGAGCAAGTGCTGCACATTCTCCTCCTCTTGATTACACAATGGATATTGCCAA GATGGTCAACACTGCGATGGGCCAATCGGTCAGCAGTCCAACAACGATTTAGCGAGGCTAACCA CACAAAAGAATTGCAAAGAGGCCAAAGCTCAAGTTTTCCAAACTTCCTTCCACGGCTCAAATTA CATGCCCCTGATGAGTTTTTTTTTTTGTGTGTGTGCTCTCATTGCTGATATCATCATGGCAAAA AGTGATGTCATACCTAAACTGCACCTCAACAACAAATGACACCAACTCATCACCAAAATCAGTG GCCTCCATGAGATTATAGCTCAACTAACCAATCACAAACTATCATCAATTATTGAGTTATTCTG CTCTCCAAACCAACAACCGTACAACCTAAGATTCCAAATTCCTAATAAATTTGGAAGAAAAAGA CTGAATATGCTTTTCCAAAAAAATACAAAACATATAGCAATAGACACAGAACAAACTAGCCAAA ATCACAGATTCAATGCCTTATAGAAGCAGCACTAAAACCCTGCTAAATTTAACGATTTTATAAA CAAGCCTAGGTTAAACGAGATACAACAAGCAAGCAAGATCACAACACATAAAATGTCAGAGATG CCACGATAACCCTACTAAATCACTCACGGGTTGAACAACATAGAGAACTACCTAGGAATTCTCC ATCCTACCATATGATAGCAATAACAATTACAAACAAATCAAAGAACCTAAACAAAAAGTCTCGA ACAGAGGCATCATCGAGAGAGAGAAGCCAGACCCGGGATCCATGTTGATGATGTCGCAGAGCTC GATGTTCACCGCCCAATCCGGCCCGATCAGCATGTCGCTCGTCGCCCTCTCCGCGCACGCCACG GCCGTCGCCATTTTCCCCCTCTCACCACCAAAAACCCTAAATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.209407196

Conservation Information
Conserved circRNAs	NA
PMCS	0.209407196

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5005748-5003738(+)
5005846-5005798(-)
						
						Potential amino acid sequence
						
							MLMMSQSSMFTAQSGPISMSLVALSAHATAVAIFPLSPPKTLNPFSLLS*(+)
MATAVACAERATSDMLIGPDWAVNIELCDIINMDPGQAKDTLKLLKKRLGNKNSKVQILTLYVL
ETLSKNCGDVVYQQIIERDILSEMVKIVKKKDLGFLVVRGGKWRRPWRARRGRRATC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	5005748-5003738(+) 5005846-5005798(-)
Potential amino acid sequence	MLMMSQSSMFTAQSGPISMSLVALSAHATAVAIFPLSPPKTLNPFSLLS(+) MATAVACAERATSDMLIGPDWAVNIELCDIINMDPGQAKDTLKLLKKRLGNKNSKVQILTLYVL ETLSKNCGDVVYQQIIERDILSEMVKIVKKKDLGFLVVRGGKWRRPWRARRGRRATC(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Lu et al., 2015;Ye et al., 2016;Chu et al., 2017

circRNA

Detail information of Os11g0199700_circ_g.9

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