Plant Circular RNA Database

Detail information of Os05g0123200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0123200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_026378
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 1292658-1294380  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0123200						
					
						Parent gene annotation
						
							Similar to IQD1. (Os05t0123200-01);IQ calmodulin-binding region 
domain containing protein. (Os05t0123200-02);Similar to IQD1. (O
s05t0123200-03)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0123200_circ_g.1 Os05g0123200_circ_g.2 Os05g0123200_circ_g.4 Os05g0123200_circ_g.5 Os05g0123200_circ_g.6 Os05g0123200_circ_g.7 Os05g0123200_circ_g.8 						
					
						Support reads
						1
					
						Tissues
						shoot
					
						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
						Os05t0123200-02:3
Os05t0123200-01:3
Os05t0123200-03:3

General Information
CircRNA Name	Os05g0123200_circ_g.3
ID in PlantcircBase	osa_circ_026378
Alias	NA
Organism	Oryza sativa
Position	chr5: 1292658-1294380 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0123200
Parent gene annotation	Similar to IQD1. (Os05t0123200-01);IQ calmodulin-binding region domain containing protein. (Os05t0123200-02);Similar to IQD1. (O s05t0123200-03)
Parent gene strand	+
Alternative splicing	Os05g0123200_circ_g.1 Os05g0123200_circ_g.2 Os05g0123200_circ_g.4 Os05g0123200_circ_g.5 Os05g0123200_circ_g.6 Os05g0123200_circ_g.7 Os05g0123200_circ_g.8
Support reads	1
Tissues	shoot
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	Os05t0123200-02:3 Os05t0123200-01:3 Os05t0123200-03:3

			
						 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  
						
							CAGCACTCAGTCTAAGGAACAAATTGAGGCGAGTCTTATAAGCAGGCAAGAGGCTGCAGTAAGA
AGGGAGAGGGCGCTCGCATATGCATTTTCACATCAGagactgaggagaaaattagcagctagta
acccgaacccgccagatctaaccccttcggcttctctggaagtcaatgtttcggtgccaccccc
tccacctc

									
								

					

						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: 624
Transcript exons: 1292658-1292945,1293857-1294072,1294261-1294380
AGACTGAGGAGAAAATTAGCAGCTAGTAACCCGAACCCGCCAGATCTAACCCCTTCGGCTTCTC
TGGAAGTCAATGTTTCGGTGCCACCCCCTCCACCTCCTCCACCTGTTCAACAGATTGAAGAGGT
TAAGGTCCCTGAAGTTGAGCAGGAGCAAAGCAAACATGTCACTGTGGAGGCTGTACCTGAGGCT
GTCCCCGTACCCGCACAGACATCGTCATTGCCACCTGGTGTATCAAGGGAAGAGCAAGCTACAA
TCAAGATCCAGACCGCCTTCCGAGGTTACCTGGCAAGGAGGGCATTACGAGCTCTGCGGGGACT
TGTCAGATTGAAGTCACTGGTTGAGGGTAACTCGGTTAAGCGTCAAGCTGCAAGCACTCTGCGT
TGCATGCAGACTCTAGCACGGGTGCAGTCGCAGATACGTTCAAGGAGGCTGAAAATGTCAGAGG
AGAACCAGGCCCTCCAGCGCCAGCTTCTGCTGAAACAGGAGCTGGAGAGTTTGAGGATGGGGGA
GCAGTGGGATGACAGCACTCAGTCTAAGGAACAAATTGAGGCGAGTCTTATAAGCAGGCAAGAG
GCTGCAGTAAGAAGGGAGAGGGCGCTCGCATATGCATTTTCACATCAG
						
					

						Genomic sequence
						
							AGACTGAGGAGAAAATTAGCAGCTAGTAACCCGAACCCGCCAGATCTAACCCCTTCGGCTTCTC
TGGAAGTCAATGTTTCGGTGCCACCCCCTCCACCTCCTCCACCTGTTCAACAGATTGAAGAGGT
TAAGGTCCCTGAAGTTGAGCAGGAGCAAAGCAAACATGTCACTGTGGAGGCTGTACCTGAGGCT
GTCCCCGTACCCGCACAGACATCGTCATTGCCACCTGGTGTATCAAGGGAAGAGCAAGCTACAA
TCAAGATCCAGACCGCCTTCCGAGGTTACCTGGTAATGTGAAATAGCTCTTGAATTCAGCTATC
TGATTGCATTTTCATTACATTTTACTCAGTTGTCTGAGAATTCGTCGTGGCTATTTATTTCATC
AGCTGCTTTCATTTACCACTGTGTTGGTGCAAATATTACAAAGGTGGTTGTGTTGAGTTTTTTA
TTTATGCTGGCTGCTGATTAGGTCATTGCAATTTGAGGTTAGACGCTAAAAGAACAGTTCTTGT
ATAGTTTTGTGATTTTGTCTCCTCATCAACATGACTGCACATGAAAGCAAATGTCTGCTGGTGG
CCAACTGGCCATCCTGAGATTTTTTTTCTCTTTTCCTGTAGAAATTTTAGGTATTGGCAGCTCA
CCAATCAATCAACCGGTAGTTGGCTGGTTGCTGTTAATTTGAAGTGAGACTCTTGATTGAAGTA
TCTTAGGTATTTACAGTTCCTGTATTCTTTTCATAATGTTGTGTGGTAAAAACAAGCTTCTATG
ATTCAGGGGTAAACTTTTCTTGTGTGACCTGTGCACCTGGGGTAACTTCAAACTTATAGTTTGG
TTCCTCTCCTTTGAAGTAGTCGTTTTGTTGTTTATTTGTTTCTGCATATGTTTGTTGACATGAT
CTACGAAAAAATCTTGGCAAGTATTAGAAATTAGTTCTTGATCAACTGGCAGTTGGTGGAAGCC
ACCTTTCATTACTAATTTTGATTCTTAATCATTTTTTGATGTTGATGGATTTGTTGGTCAGGCT
TATTGATGCCCCTTGTCCCTTCATACAAAGATAACATTTCTTGAAGTCGACTTAGCAGCAGTAT
ATTCTCTTCCTTGGAAAACATGATAGCAAATTTTAAAACTTGACCTAGCGAGAAGTAAAAATTT
TGTTACTTCTATAATATATTGACCATTTCATCGCTGCAATAATGCAGGCAAGGAGGGCATTACG
AGCTCTGCGGGGACTTGTCAGATTGAAGTCACTGGTTGAGGGTAACTCGGTTAAGCGTCAAGCT
GCAAGCACTCTGCGTTGCATGCAGACTCTAGCACGGGTGCAGTCGCAGATACGTTCAAGGAGGC
TGAAAATGTCAGAGGAGAACCAGGCCCTCCAGCGCCAGCTTCTGCTGAAACAGGAGCTGGAGAG
TTTGAGGGTAGGCAAACTATCTCAAAACCTTGCAATCTGTCGATAAAATATTTCCTAGGATACT
ATTATTATTAGTTCTATTGTAAATAAATTTTGCTTGATGAGAACTCTAGTATGCAGTTGTTCTA
CATCTCTCAGAAAATCATAAAATATCATTGGGAGCATTAAACATACTCTATTTGTGAATCATAT
CAGATGGGGGAGCAGTGGGATGACAGCACTCAGTCTAAGGAACAAATTGAGGCGAGTCTTATAA
GCAGGCAAGAGGCTGCAGTAAGAAGGGAGAGGGCGCTCGCATATGCATTTTCACATCAG
						
					

			
		

Sequences
Splice junction sequence	CAGCACTCAGTCTAAGGAACAAATTGAGGCGAGTCTTATAAGCAGGCAAGAGGCTGCAGTAAGA AGGGAGAGGGCGCTCGCATATGCATTTTCACATCAGagactgaggagaaaattagcagctagta acccgaacccgccagatctaaccccttcggcttctctggaagtcaatgtttcggtgccaccccc tccacctc
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: 624 Transcript exons: 1292658-1292945,1293857-1294072,1294261-1294380 AGACTGAGGAGAAAATTAGCAGCTAGTAACCCGAACCCGCCAGATCTAACCCCTTCGGCTTCTC TGGAAGTCAATGTTTCGGTGCCACCCCCTCCACCTCCTCCACCTGTTCAACAGATTGAAGAGGT TAAGGTCCCTGAAGTTGAGCAGGAGCAAAGCAAACATGTCACTGTGGAGGCTGTACCTGAGGCT GTCCCCGTACCCGCACAGACATCGTCATTGCCACCTGGTGTATCAAGGGAAGAGCAAGCTACAA TCAAGATCCAGACCGCCTTCCGAGGTTACCTGGCAAGGAGGGCATTACGAGCTCTGCGGGGACT TGTCAGATTGAAGTCACTGGTTGAGGGTAACTCGGTTAAGCGTCAAGCTGCAAGCACTCTGCGT TGCATGCAGACTCTAGCACGGGTGCAGTCGCAGATACGTTCAAGGAGGCTGAAAATGTCAGAGG AGAACCAGGCCCTCCAGCGCCAGCTTCTGCTGAAACAGGAGCTGGAGAGTTTGAGGATGGGGGA GCAGTGGGATGACAGCACTCAGTCTAAGGAACAAATTGAGGCGAGTCTTATAAGCAGGCAAGAG GCTGCAGTAAGAAGGGAGAGGGCGCTCGCATATGCATTTTCACATCAG
Genomic sequence	AGACTGAGGAGAAAATTAGCAGCTAGTAACCCGAACCCGCCAGATCTAACCCCTTCGGCTTCTC TGGAAGTCAATGTTTCGGTGCCACCCCCTCCACCTCCTCCACCTGTTCAACAGATTGAAGAGGT TAAGGTCCCTGAAGTTGAGCAGGAGCAAAGCAAACATGTCACTGTGGAGGCTGTACCTGAGGCT GTCCCCGTACCCGCACAGACATCGTCATTGCCACCTGGTGTATCAAGGGAAGAGCAAGCTACAA TCAAGATCCAGACCGCCTTCCGAGGTTACCTGGTAATGTGAAATAGCTCTTGAATTCAGCTATC TGATTGCATTTTCATTACATTTTACTCAGTTGTCTGAGAATTCGTCGTGGCTATTTATTTCATC AGCTGCTTTCATTTACCACTGTGTTGGTGCAAATATTACAAAGGTGGTTGTGTTGAGTTTTTTA TTTATGCTGGCTGCTGATTAGGTCATTGCAATTTGAGGTTAGACGCTAAAAGAACAGTTCTTGT ATAGTTTTGTGATTTTGTCTCCTCATCAACATGACTGCACATGAAAGCAAATGTCTGCTGGTGG CCAACTGGCCATCCTGAGATTTTTTTTCTCTTTTCCTGTAGAAATTTTAGGTATTGGCAGCTCA CCAATCAATCAACCGGTAGTTGGCTGGTTGCTGTTAATTTGAAGTGAGACTCTTGATTGAAGTA TCTTAGGTATTTACAGTTCCTGTATTCTTTTCATAATGTTGTGTGGTAAAAACAAGCTTCTATG ATTCAGGGGTAAACTTTTCTTGTGTGACCTGTGCACCTGGGGTAACTTCAAACTTATAGTTTGG TTCCTCTCCTTTGAAGTAGTCGTTTTGTTGTTTATTTGTTTCTGCATATGTTTGTTGACATGAT CTACGAAAAAATCTTGGCAAGTATTAGAAATTAGTTCTTGATCAACTGGCAGTTGGTGGAAGCC ACCTTTCATTACTAATTTTGATTCTTAATCATTTTTTGATGTTGATGGATTTGTTGGTCAGGCT TATTGATGCCCCTTGTCCCTTCATACAAAGATAACATTTCTTGAAGTCGACTTAGCAGCAGTAT ATTCTCTTCCTTGGAAAACATGATAGCAAATTTTAAAACTTGACCTAGCGAGAAGTAAAAATTT TGTTACTTCTATAATATATTGACCATTTCATCGCTGCAATAATGCAGGCAAGGAGGGCATTACG AGCTCTGCGGGGACTTGTCAGATTGAAGTCACTGGTTGAGGGTAACTCGGTTAAGCGTCAAGCT GCAAGCACTCTGCGTTGCATGCAGACTCTAGCACGGGTGCAGTCGCAGATACGTTCAAGGAGGC TGAAAATGTCAGAGGAGAACCAGGCCCTCCAGCGCCAGCTTCTGCTGAAACAGGAGCTGGAGAG TTTGAGGGTAGGCAAACTATCTCAAAACCTTGCAATCTGTCGATAAAATATTTCCTAGGATACT ATTATTATTAGTTCTATTGTAAATAAATTTTGCTTGATGAGAACTCTAGTATGCAGTTGTTCTA CATCTCTCAGAAAATCATAAAATATCATTGGGAGCATTAAACATACTCTATTTGTGAATCATAT CAGATGGGGGAGCAGTGGGATGACAGCACTCAGTCTAAGGAACAAATTGAGGCGAGTCTTATAA GCAGGCAAGAGGCTGCAGTAAGAAGGGAGAGGGCGCTCGCATATGCATTTTCACATCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.35549923

Conservation Information
Conserved circRNAs	NA
PMCS	0.35549923

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							1293957-1294377(+)
						
						Potential amino acid sequence
						
							MQTLARVQSQIRSRRLKMSEENQALQRQLLLKQELESLRMGEQWDDSTQSKEQIEASLISRQEA
AVRRERALAYAFSHQRLRRKLAASNPNPPDLTPSASLEVNVSVPPPPPPPPVQQIEEVKVPEVE
QEQSKHVTVEAVPEAVPVPAQTSSLPPGVSREEQATIKIQTAFRGYLARRALRALRGLVRLKSL
VEGNSVKRQAASTLRCMQTLARVQSQIRSRRLKMSEENQALQRQLLLKQELESLRMGEQWDDST
QSKEQIEASLISRQEAAVRRERALAYAFSHQRLRRKLAASNPNPPDLTPSASLEVNVSVPPPPP
PPPVQQIEEVKVPEVEQEQSKHVTVEAVPEAVPVPAQTSSLPPGVSREEQATIKIQTAFRGYLA
RRALRALRGLVRLKSLVEGNSVKRQAASTLRCMQTLARVQSQIRSRRLKMSEENQALQRQLLLK
QELESLRMGEQWDDSTQSKEQIEASLISRQEAAVRRERALAYAFSHQRLRRKLAASNPNPPDLT
PSASLEVNVSVPPPPPPPPVQQIEEVKVPEVEQEQSKHVTVEAVPEAVPVPAQTSSLPPGVSRE
EQATIKIQTAFRGYLARRALRALRGLVRLKSLVEGNSVKRQAASTLRCMQTLARVQSQIRSRRL
KMSEENQALQRQLLLKQELESLRMGEQWDDSTQSKEQIEASLISRQEAAVRRERALAYAFSHQ(
+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	1293957-1294377(+)
Potential amino acid sequence	MQTLARVQSQIRSRRLKMSEENQALQRQLLLKQELESLRMGEQWDDSTQSKEQIEASLISRQEA AVRRERALAYAFSHQRLRRKLAASNPNPPDLTPSASLEVNVSVPPPPPPPPVQQIEEVKVPEVE QEQSKHVTVEAVPEAVPVPAQTSSLPPGVSREEQATIKIQTAFRGYLARRALRALRGLVRLKSL VEGNSVKRQAASTLRCMQTLARVQSQIRSRRLKMSEENQALQRQLLLKQELESLRMGEQWDDST QSKEQIEASLISRQEAAVRRERALAYAFSHQRLRRKLAASNPNPPDLTPSASLEVNVSVPPPPP PPPVQQIEEVKVPEVEQEQSKHVTVEAVPEAVPVPAQTSSLPPGVSREEQATIKIQTAFRGYLA RRALRALRGLVRLKSLVEGNSVKRQAASTLRCMQTLARVQSQIRSRRLKMSEENQALQRQLLLK QELESLRMGEQWDDSTQSKEQIEASLISRQEAAVRRERALAYAFSHQRLRRKLAASNPNPPDLT PSASLEVNVSVPPPPPPPPVQQIEEVKVPEVEQEQSKHVTVEAVPEAVPVPAQTSSLPPGVSRE EQATIKIQTAFRGYLARRALRALRGLVRLKSLVEGNSVKRQAASTLRCMQTLARVQSQIRSRRL KMSEENQALQRQLLLKQELESLRMGEQWDDSTQSKEQIEASLISRQEAAVRRERALAYAFSHQ( +)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0123200_circ_g.3

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