Plant Circular RNA Database

Detail information of Os03g0856400_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os03g0856400_circ_g.3
					
						ID in PlantcircBase
						osa_circ_022791
					
						Alias
						Os_ciR4763
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 36129142-36130605  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os03g0856400						
					
						Parent gene annotation
						
							Similar to Protein kinase AKINbetagamma-2. (Os03t0856400-01);Sim
ilar to Protein kinase AKINbetagamma-2. (Os03t0856400-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os03g0856400_circ_g.4 						
					
						Support reads
						4
					
						Tissues
						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
						Os03t0856400-01:5
Os03t0856400-02:5

General Information
CircRNA Name	Os03g0856400_circ_g.3
ID in PlantcircBase	osa_circ_022791
Alias	Os_ciR4763
Organism	Oryza sativa
Position	chr3: 36129142-36130605 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os03g0856400
Parent gene annotation	Similar to Protein kinase AKINbetagamma-2. (Os03t0856400-01);Sim ilar to Protein kinase AKINbetagamma-2. (Os03t0856400-02)
Parent gene strand	+
Alternative splicing	Os03g0856400_circ_g.4
Support reads	4
Tissues	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	Os03t0856400-01:5 Os03t0856400-02:5

			
						 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  
						
							TGTATTCATTGTGTTTTTTCCATTATGTAGTGACATCACAGCTCTTGCAAAAGACAAGGTGTAC
ACACACATTCGCCTAGATGAGATGACCATTCATCAGctggaaactcatggctccaatctgacag
aagagcagcttgaaacacatactatatctgcgtggaaggaggccaagcgtcaaacttatgccag
aaacgagg

									
								

					

						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: 585
Transcript exons: 36129142-36129273,36129797-36129941,36130024-36130197,36
130387-36130450,36130536-36130605
CTGGAAACTCATGGCTCCAATCTGACAGAAGAGCAGCTTGAAACACATACTATATCTGCGTGGA
AGGAGGCCAAGCGTCAAACTTATGCCAGAAACGAGGGTTCTTGGAGGGCAAATCACCATTTAGT
TCATGCCACCCCTTATGAATCCCTGAGGGAAATTGCTATGAAGATACTGCAAAACGGTGTTTCT
ACCGTTCCAATTATGTTTTCCTCATCACCAGATGGCTCATATCCACAATTGTTGCATCTTGCTT
CCCTTTCTGGAATTTTGAAATGTATTTGTAGATATTTTAAAAATTCTCAAGGTAATTTACCTAT
TTTGAGCCAACCTGTATGCACAATTCCTCTGGGTACCTGGGTTCCAAAAATTGGTGATCCTAAT
GGCCGTCCATTGGCTATGTTGCGGCCTAACACATCTCTTAGCGCTGCCCTGAATTTGCTGGTTC
AAGCTGGTGTGAGCTCAATACCAATTGTGGATGACAATGACTCACTGCTTGACACATATTCCAG
AAGTGACATCACAGCTCTTGCAAAAGACAAGGTGTACACACACATTCGCCTAGATGAGATGACC
ATTCATCAG
						
					

						Genomic sequence
						
							CTGGAAACTCATGGCTCCAATCTGACAGAAGAGCAGCTTGAAACACATACTATATCTGCGTGGA
AGGAGGCCAAGCGTCAAACTTATGCCAGAAACGAGGGTTCTTGGAGGGCAAATCACCATTTAGT
TCATGTGAGTTGTCCACTGTGTTTGTGAACCAATTGCAAATCTGTATGCACTCACCACAAATTG
AGACTGCTGCCATCAACTTCTATCTATATTTACTGGCCAAATTACACTCCAGTGAATTTTAGAA
TTCATGTATTGCATTCTAAGGATAATATTTTACCCTTTGATTTATTTGCATTTGACAAATTGTT
GTCAACAATTGTTGTGTGAGTACCACATAACAGTTTTTGGCACACCATGACACACATTTTTGTC
ATAACATTTTTTGGCACACTATGACACATTTTACTTTTTGTGTTACAACTAAGTTATCTACTGG
ATGCTGAAATATATTTTGCTTAATTAGCTTTAATTGCCATGCTCAAGTGAGTTACTTAGTGAAC
TGCAATTTGTTTGGTGTGAAATTTCATCGAACCCCTTGCATCAACTGTTCCTTTTCATTTCCAT
CCTAGTATTTTATAACATGCTTAGTTTTATAATGATCATGTGTCTCATGCACTTATGCTGGAGT
GAATCTATTGTTTAGGCCACCCCTTATGAATCCCTGAGGGAAATTGCTATGAAGATACTGCAAA
ACGGTGTTTCTACCGTTCCAATTATGTTTTCCTCATCACCAGATGGCTCATATCCACAATTGTT
GCATCTTGCTTCCCTTTCTGGAATTTTGAAATGTAAGTGTTTCTATGTATTTGCATGAAAAGTG
TGCTATACACAAACATATTACATGATAGCTTAACAACATTTCATTTTCAGGTATTTGTAGATAT
TTTAAAAATTCTCAAGGTAATTTACCTATTTTGAGCCAACCTGTATGCACAATTCCTCTGGGTA
CCTGGGTTCCAAAAATTGGTGATCCTAATGGCCGTCCATTGGCTATGTTGCGGCCTAACACATC
TCTTAGCGCTGCCCTGAATTTGCTGGTTCAAGGTATGTTATCTGTCTGTTTTACCATAACCAAT
GCCTGGGAAAGTACTTGCATTTCTGTTTCTTGGTGCAATTACTGAAGTTTAATACTAATTCCAC
TGAGATCTCTTACAGCTTTCGATTATTTACGCTATCTTGTTGCCAAATTAATGTCTTATTACAA
TTACTCTGTACTCTAATTGTTTCATTCAGCTGGTGTGAGCTCAATACCAATTGTGGATGACAAT
GACTCACTGCTTGACACATATTCCAGAAGGTGCCCATTTGATACTCACCATTCTTTGTGTAGTC
ATATACTATTCTTTGGTCCATGTATTCATTGTGTTTTTTCCATTATGTAGTGACATCACAGCTC
TTGCAAAAGACAAGGTGTACACACACATTCGCCTAGATGAGATGACCATTCATCAG
						
					

			
		

Sequences
Splice junction sequence	TGTATTCATTGTGTTTTTTCCATTATGTAGTGACATCACAGCTCTTGCAAAAGACAAGGTGTAC ACACACATTCGCCTAGATGAGATGACCATTCATCAGctggaaactcatggctccaatctgacag aagagcagcttgaaacacatactatatctgcgtggaaggaggccaagcgtcaaacttatgccag aaacgagg
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: 585 Transcript exons: 36129142-36129273,36129797-36129941,36130024-36130197,36 130387-36130450,36130536-36130605 CTGGAAACTCATGGCTCCAATCTGACAGAAGAGCAGCTTGAAACACATACTATATCTGCGTGGA AGGAGGCCAAGCGTCAAACTTATGCCAGAAACGAGGGTTCTTGGAGGGCAAATCACCATTTAGT TCATGCCACCCCTTATGAATCCCTGAGGGAAATTGCTATGAAGATACTGCAAAACGGTGTTTCT ACCGTTCCAATTATGTTTTCCTCATCACCAGATGGCTCATATCCACAATTGTTGCATCTTGCTT CCCTTTCTGGAATTTTGAAATGTATTTGTAGATATTTTAAAAATTCTCAAGGTAATTTACCTAT TTTGAGCCAACCTGTATGCACAATTCCTCTGGGTACCTGGGTTCCAAAAATTGGTGATCCTAAT GGCCGTCCATTGGCTATGTTGCGGCCTAACACATCTCTTAGCGCTGCCCTGAATTTGCTGGTTC AAGCTGGTGTGAGCTCAATACCAATTGTGGATGACAATGACTCACTGCTTGACACATATTCCAG AAGTGACATCACAGCTCTTGCAAAAGACAAGGTGTACACACACATTCGCCTAGATGAGATGACC ATTCATCAG
Genomic sequence	CTGGAAACTCATGGCTCCAATCTGACAGAAGAGCAGCTTGAAACACATACTATATCTGCGTGGA AGGAGGCCAAGCGTCAAACTTATGCCAGAAACGAGGGTTCTTGGAGGGCAAATCACCATTTAGT TCATGTGAGTTGTCCACTGTGTTTGTGAACCAATTGCAAATCTGTATGCACTCACCACAAATTG AGACTGCTGCCATCAACTTCTATCTATATTTACTGGCCAAATTACACTCCAGTGAATTTTAGAA TTCATGTATTGCATTCTAAGGATAATATTTTACCCTTTGATTTATTTGCATTTGACAAATTGTT GTCAACAATTGTTGTGTGAGTACCACATAACAGTTTTTGGCACACCATGACACACATTTTTGTC ATAACATTTTTTGGCACACTATGACACATTTTACTTTTTGTGTTACAACTAAGTTATCTACTGG ATGCTGAAATATATTTTGCTTAATTAGCTTTAATTGCCATGCTCAAGTGAGTTACTTAGTGAAC TGCAATTTGTTTGGTGTGAAATTTCATCGAACCCCTTGCATCAACTGTTCCTTTTCATTTCCAT CCTAGTATTTTATAACATGCTTAGTTTTATAATGATCATGTGTCTCATGCACTTATGCTGGAGT GAATCTATTGTTTAGGCCACCCCTTATGAATCCCTGAGGGAAATTGCTATGAAGATACTGCAAA ACGGTGTTTCTACCGTTCCAATTATGTTTTCCTCATCACCAGATGGCTCATATCCACAATTGTT GCATCTTGCTTCCCTTTCTGGAATTTTGAAATGTAAGTGTTTCTATGTATTTGCATGAAAAGTG TGCTATACACAAACATATTACATGATAGCTTAACAACATTTCATTTTCAGGTATTTGTAGATAT TTTAAAAATTCTCAAGGTAATTTACCTATTTTGAGCCAACCTGTATGCACAATTCCTCTGGGTA CCTGGGTTCCAAAAATTGGTGATCCTAATGGCCGTCCATTGGCTATGTTGCGGCCTAACACATC TCTTAGCGCTGCCCTGAATTTGCTGGTTCAAGGTATGTTATCTGTCTGTTTTACCATAACCAAT GCCTGGGAAAGTACTTGCATTTCTGTTTCTTGGTGCAATTACTGAAGTTTAATACTAATTCCAC TGAGATCTCTTACAGCTTTCGATTATTTACGCTATCTTGTTGCCAAATTAATGTCTTATTACAA TTACTCTGTACTCTAATTGTTTCATTCAGCTGGTGTGAGCTCAATACCAATTGTGGATGACAAT GACTCACTGCTTGACACATATTCCAGAAGGTGCCCATTTGATACTCACCATTCTTTGTGTAGTC ATATACTATTCTTTGGTCCATGTATTCATTGTGTTTTTTCCATTATGTAGTGACATCACAGCTC TTGCAAAAGACAAGGTGTACACACACATTCGCCTAGATGAGATGACCATTCATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.259549818

Conservation Information
Conserved circRNAs	NA
PMCS	0.259549818

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							36129831-36130602(+)
36129266-36130584(-)
						
						Potential amino acid sequence
						
							MKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQPVCTIPLGT
WVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDITALAKDKVY
THIRLDEMTIHQLETHGSNLTEEQLETHTISAWKEAKRQTYARNEGSWRANHHLVHATPYESLR
EIAMKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQPVCTIP
LGTWVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDITALAKD
KVYTHIRLDEMTIHQLETHGSNLTEEQLETHTISAWKEAKRQTYARNEGSWRANHHLVHATPYE
SLREIAMKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQPVC
TIPLGTWVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDITAL
AKDKVYTHIRLDEMTIHQLETHGSNLTEEQLETHTISAWKEAKRQTYARNEGSWRANHHLVHAT
PYESLREIAMKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQ
PVCTIPLGTWVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDI
TALAKDKVYTHIRLDEMTIHQ(+)
MVICPPRTLVSGISLTLGLLPRRYSMCFKLLFCQIGAMSFQLMNGHLI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	36129831-36130602(+) 36129266-36130584(-)
Potential amino acid sequence	MKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQPVCTIPLGT WVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDITALAKDKVY THIRLDEMTIHQLETHGSNLTEEQLETHTISAWKEAKRQTYARNEGSWRANHHLVHATPYESLR EIAMKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQPVCTIP LGTWVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDITALAKD KVYTHIRLDEMTIHQLETHGSNLTEEQLETHTISAWKEAKRQTYARNEGSWRANHHLVHATPYE SLREIAMKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQPVC TIPLGTWVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDITAL AKDKVYTHIRLDEMTIHQLETHGSNLTEEQLETHTISAWKEAKRQTYARNEGSWRANHHLVHAT PYESLREIAMKILQNGVSTVPIMFSSSPDGSYPQLLHLASLSGILKCICRYFKNSQGNLPILSQ PVCTIPLGTWVPKIGDPNGRPLAMLRPNTSLSAALNLLVQAGVSSIPIVDDNDSLLDTYSRSDI TALAKDKVYTHIRLDEMTIHQ(+) MVICPPRTLVSGISLTLGLLPRRYSMCFKLLFCQIGAMSFQLMNGHLI*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os03g0856400_circ_g.3

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