Plant Circular RNA Database

Detail information of Os03g0320100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0320100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_019537
					
						Alias
						Os_ciR1727
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 11550445-11551524  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os03g0320100						
					
						Parent gene annotation
						
							Alpha-L-arabinofuranosidase, C-terminal domain containing protei
n. (Os03t0320100-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0320100_circ_g.1 Os03g0320100_circ_g.2 Os03g0320100_circ_igg.1 Os03g0320100_circ_igg.2 Os03g0320100_circ_g.3 Os03g0320100_circ_g.4 Os03g0320100_circ_igg.5 						
					
						Support reads
						10/2
					
						Tissues
						root/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
						Os03t0320100-01:4

General Information
CircRNA Name	Os03g0320100_circ_g.3
ID in PlantcircBase	osa_circ_019537
Alias	Os_ciR1727
Organism	Oryza sativa
Position	chr3: 11550445-11551524 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os03g0320100
Parent gene annotation	Alpha-L-arabinofuranosidase, C-terminal domain containing protei n. (Os03t0320100-01)
Parent gene strand	-
Alternative splicing	Os03g0320100_circ_g.1 Os03g0320100_circ_g.2 Os03g0320100_circ_igg.1 Os03g0320100_circ_igg.2 Os03g0320100_circ_g.3 Os03g0320100_circ_g.4 Os03g0320100_circ_igg.5
Support reads	10/2
Tissues	root/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	Os03t0320100-01:4

			
						 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  
						
							TTCTTTCTAATCCAATGAGAAATGCAGCTTCTGCTAGAGCAGCTACTAATGTTCCTCGGCCAGC
ATCATTTCCAGTCACCGCATATTCACTAACAAATGCcttgtcaggctgttggaaagagttctca
tcccgcagccaaccagatgtaagcaccgtctttatggacccgaattcctgaatgccattctcta
gtccagct

									
								

					

						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: 212
Transcript exons: 11550445-11550529,11551081-11551139,11551457-11551524
CTTGTCAGGCTGTTGGAAAGAGTTCTCATCCCGCAGCCAACCAGATGTAAGCACCGTCTTTATG
GACCCGAATTCCTGAATGCCACCGCGATCGTTGTCATTTATGAAGAGTGGAGCACAACTTGCCA
TCTCGACCACATCACTGCTAGAGCAGCTACTAATGTTCCTCGGCCAGCATCATTTCCAGTCACC
GCATATTCACTAACAAATGC
Transcript length: 504
Transcript exons: 11550445-11550588,11550668-11550866,11551081-11551137,11
551421-11551524
CTTGTCAGGCTGTTGGAAAGAGTTCTCATCCCGCAGCCAACCAGATGTAAGCACCGTCTTTATG
GACCCGAATTCCTGAATGCCATTCTCTAGTCCAGCTACAGCTATATTAAGATTCACAGCTTTGT
TACCAAAATTGACAACCTTTATTTTCAAGTAAGTGTTTCCATCGTTAGAATTCTGCCAAGTGAG
AGCAGATGCGGCCAATTGATCATAGTTTGACACCTGAATTGTCAAGGGATGAAGTGTTGCACCA
CTTGAGTCCTTGAAGAAGTGTAGCATCCAGTAGTTTGGACATCCATAGTGCTGCCATGAGTTGA
AGACTATGGCATCTGGACTAAACCCGCGATCGTTGTCATTTATGAAGAGTGGAGCACAACTTGC
CATCTCGACCACATCACTGTTTCTTTCTAATCCAATGAGAAATGCAGCTTCTGCTAGAGCAGCT
ACTAATGTTCCTCGGCCAGCATCATTTCCAGTCACCGCATATTCACTAACAAATGC
						
					

						Genomic sequence
						
							CTTGTCAGGCTGTTGGAAAGAGTTCTCATCCCGCAGCCAACCAGATGTAAGCACCGTCTTTATG
GACCCGAATTCCTGAATGCCATTCTCTAGTCCAGCTACAGCTATATTAAGATTCACAGCTTTGT
TACCAAAATTGACAACCTGCAAGAGAGAATTTCCTGGCCGGTTATTTCAATTTCAGTTGTGTCA
GCGATGTTCCTTAGTGGGATAGTAAAAATACCTTTATTTTCAAGTAAGTGTTTCCATCGTTAGA
ATTCTGCCAAGTGAGAGCAGATGCGGCCAATTGATCATAGTTTGACACCTGAATTGTCAAGGGA
TGAAGTGTTGCACCACTTGAGTCCTTGAAGAAGTGTAGCATCCAGTAGTTTGGACATCCATAGT
GCTGCCATGAGTTGAAGACTATGGCATCTGGACTAAACCTATTCAACAGGGCATGCATCATTGG
TAAAAGAACAGTTTATCATGAAGAACTACTATATACGTCTCTATCTCTAGAGATACTCCCATTC
TACAGTTTGCCTATGAAGTAGGTGGGTTATCCAAAATTCATCCTGTCTTCAGTGGACAAATATG
TAGCAGGGTGAGGAGATTAAAGTGTAGACAAAAGCTTGATTGGAGAAGTTGACAATTTACCCGC
GATCGTTGTCATTTATGAAGAGTGGAGCACAACTTGCCATCTCGACCACATCACTGCACAGAAA
CAGCTCGCAAAACAAGTAAGCTTCCAATAAAAGCAAGTATCACCCAGGTGCCAAAACTAGGGCC
TGTTCGCTTTGATGCCAAAAAAAACCTTACCAAATTTTGGCATAGTTACCAAAATTTTGGCAAC
TGGCAGGATTTCTTATATATTTACCAAAATTTGGCAGCAAACTAAATGTAGCCACTTTATTGGC
AACTTTACCAAATTTTGGTAAGGTTGAAAATGGCATCAAAGTGAACAGGCCCTAGAAATGCCAT
AAAAGAGGCAAAAGACCTGTTTCTTTCTAATCCAATGAGAAATGCAGCTTCTGCTAGAGCAGCT
ACTAATGTTCCTCGGCCAGCATCATTTCCAGTCACCGCATATTCACTAACAAATGC
						
					

			
		

Sequences
Splice junction sequence	TTCTTTCTAATCCAATGAGAAATGCAGCTTCTGCTAGAGCAGCTACTAATGTTCCTCGGCCAGC ATCATTTCCAGTCACCGCATATTCACTAACAAATGCcttgtcaggctgttggaaagagttctca tcccgcagccaaccagatgtaagcaccgtctttatggacccgaattcctgaatgccattctcta gtccagct
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: 212 Transcript exons: 11550445-11550529,11551081-11551139,11551457-11551524 CTTGTCAGGCTGTTGGAAAGAGTTCTCATCCCGCAGCCAACCAGATGTAAGCACCGTCTTTATG GACCCGAATTCCTGAATGCCACCGCGATCGTTGTCATTTATGAAGAGTGGAGCACAACTTGCCA TCTCGACCACATCACTGCTAGAGCAGCTACTAATGTTCCTCGGCCAGCATCATTTCCAGTCACC GCATATTCACTAACAAATGC Transcript length: 504 Transcript exons: 11550445-11550588,11550668-11550866,11551081-11551137,11 551421-11551524 CTTGTCAGGCTGTTGGAAAGAGTTCTCATCCCGCAGCCAACCAGATGTAAGCACCGTCTTTATG GACCCGAATTCCTGAATGCCATTCTCTAGTCCAGCTACAGCTATATTAAGATTCACAGCTTTGT TACCAAAATTGACAACCTTTATTTTCAAGTAAGTGTTTCCATCGTTAGAATTCTGCCAAGTGAG AGCAGATGCGGCCAATTGATCATAGTTTGACACCTGAATTGTCAAGGGATGAAGTGTTGCACCA CTTGAGTCCTTGAAGAAGTGTAGCATCCAGTAGTTTGGACATCCATAGTGCTGCCATGAGTTGA AGACTATGGCATCTGGACTAAACCCGCGATCGTTGTCATTTATGAAGAGTGGAGCACAACTTGC CATCTCGACCACATCACTGTTTCTTTCTAATCCAATGAGAAATGCAGCTTCTGCTAGAGCAGCT ACTAATGTTCCTCGGCCAGCATCATTTCCAGTCACCGCATATTCACTAACAAATGC
Genomic sequence	CTTGTCAGGCTGTTGGAAAGAGTTCTCATCCCGCAGCCAACCAGATGTAAGCACCGTCTTTATG GACCCGAATTCCTGAATGCCATTCTCTAGTCCAGCTACAGCTATATTAAGATTCACAGCTTTGT TACCAAAATTGACAACCTGCAAGAGAGAATTTCCTGGCCGGTTATTTCAATTTCAGTTGTGTCA GCGATGTTCCTTAGTGGGATAGTAAAAATACCTTTATTTTCAAGTAAGTGTTTCCATCGTTAGA ATTCTGCCAAGTGAGAGCAGATGCGGCCAATTGATCATAGTTTGACACCTGAATTGTCAAGGGA TGAAGTGTTGCACCACTTGAGTCCTTGAAGAAGTGTAGCATCCAGTAGTTTGGACATCCATAGT GCTGCCATGAGTTGAAGACTATGGCATCTGGACTAAACCTATTCAACAGGGCATGCATCATTGG TAAAAGAACAGTTTATCATGAAGAACTACTATATACGTCTCTATCTCTAGAGATACTCCCATTC TACAGTTTGCCTATGAAGTAGGTGGGTTATCCAAAATTCATCCTGTCTTCAGTGGACAAATATG TAGCAGGGTGAGGAGATTAAAGTGTAGACAAAAGCTTGATTGGAGAAGTTGACAATTTACCCGC GATCGTTGTCATTTATGAAGAGTGGAGCACAACTTGCCATCTCGACCACATCACTGCACAGAAA CAGCTCGCAAAACAAGTAAGCTTCCAATAAAAGCAAGTATCACCCAGGTGCCAAAACTAGGGCC TGTTCGCTTTGATGCCAAAAAAAACCTTACCAAATTTTGGCATAGTTACCAAAATTTTGGCAAC TGGCAGGATTTCTTATATATTTACCAAAATTTGGCAGCAAACTAAATGTAGCCACTTTATTGGC AACTTTACCAAATTTTGGTAAGGTTGAAAATGGCATCAAAGTGAACAGGCCCTAGAAATGCCAT AAAAGAGGCAAAAGACCTGTTTCTTTCTAATCCAATGAGAAATGCAGCTTCTGCTAGAGCAGCT ACTAATGTTCCTCGGCCAGCATCATTTCCAGTCACCGCATATTCACTAACAAATGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.389372485

Conservation Information
Conserved circRNAs	NA
PMCS	0.389372485

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11550850-11550520(+)
11551126-11550447(-)
						
						Potential amino acid sequence
						
							MASGLNPRSLSFMKSGAQLAISTTSLFLSNPMRNAASARAATNVPRPASFPVTAYSLTNALSGC
WKEFSSRSQPDVSTVFMDPNS*(+)
MASCAPLFINDNDRGFSPDAIVFNSWQHYGCPNYWMLHFFKDSSGATLHPLTIQVSNYDQLAAS
ALTWQNSNDGNTYLKIKVVNFGNKAVNLNIAVAGLENGIQEFGSIKTVLTSGWLRDENSFQQPD
KAFVSEYAVTGNDAGRGTLVAALAEAAFLIGLERNSDVVEMASCAPLFINDNDRGFSPDAIVFN
SWQHYGCPNYWMLHFFKDSSGATLHPLTIQVSNYDQLAASALTWQNSNDGNTYLKIKVVNFGNK
AVNLNIAVAGLENGIQEFGSIKTVLTSGWLRDENSFQQPDKAFVSEYAVTGNDAGRGTLVAALA
EAAFLIGLERNSDVVEMASCAPLFINDNDRGFSPDAIVFNSWQHYGCPNYWMLHFFKDSSGATL
HPLTIQVSNYDQLAASALTWQNSNDGNTYLKIKVVNFGNKAVNLNIAVAGLENGIQEFGSIKTV
LTSGWLRDENSFQQPDKAFVSEYAVTGNDAGRGTLVAALAEAAFLIGLERNSDVVEMASCAPLF
INDNDRGFSPDAIVFNSWQHYGCPNYWMLHFFKDSSGATLHPLTIQVSNYDQLAASALTWQNSN
DGNTYLKIKVVNFGNKAVNLNIAVAGLENGIQEFGSIKTVLTSGWLRDENSFQQPDK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11550850-11550520(+) 11551126-11550447(-)
Potential amino acid sequence	MASGLNPRSLSFMKSGAQLAISTTSLFLSNPMRNAASARAATNVPRPASFPVTAYSLTNALSGC WKEFSSRSQPDVSTVFMDPNS*(+) MASCAPLFINDNDRGFSPDAIVFNSWQHYGCPNYWMLHFFKDSSGATLHPLTIQVSNYDQLAAS ALTWQNSNDGNTYLKIKVVNFGNKAVNLNIAVAGLENGIQEFGSIKTVLTSGWLRDENSFQQPD KAFVSEYAVTGNDAGRGTLVAALAEAAFLIGLERNSDVVEMASCAPLFINDNDRGFSPDAIVFN SWQHYGCPNYWMLHFFKDSSGATLHPLTIQVSNYDQLAASALTWQNSNDGNTYLKIKVVNFGNK AVNLNIAVAGLENGIQEFGSIKTVLTSGWLRDENSFQQPDKAFVSEYAVTGNDAGRGTLVAALA EAAFLIGLERNSDVVEMASCAPLFINDNDRGFSPDAIVFNSWQHYGCPNYWMLHFFKDSSGATL HPLTIQVSNYDQLAASALTWQNSNDGNTYLKIKVVNFGNKAVNLNIAVAGLENGIQEFGSIKTV LTSGWLRDENSFQQPDKAFVSEYAVTGNDAGRGTLVAALAEAAFLIGLERNSDVVEMASCAPLF INDNDRGFSPDAIVFNSWQHYGCPNYWMLHFFKDSSGATLHPLTIQVSNYDQLAASALTWQNSN DGNTYLKIKVVNFGNKAVNLNIAVAGLENGIQEFGSIKTVLTSGWLRDENSFQQPDK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Os03g0320100_circ_g.3

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