Plant Circular RNA Database

Detail information of Os02g0608400_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os02g0608400_circ_g.3
					
						ID in PlantcircBase
						osa_circ_015422
					
						Alias
						Os_ciR7877
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 23868290-23871119  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os02g0608400						
					
						Parent gene annotation
						
							EF-Hand type domain containing protein. (Os02t0608400-01);Simila
r to Ca2+ binding protein cbp1. (Os02t0608400-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os02g0608400_circ_g.1 Os02g0608400_circ_g.2 Os02g0608400_circ_g.4 Os02g0608400_circ_g.5 Os02g0608400_circ_g.6 Os02g0608400_circ_g.7 Os02g0608400_circ_g.8 Os02g0608400_circ_g.9 Os02g0608400_circ_g.10 						
					
						Support reads
						2/2
					
						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
						Os02t0608400-01:6
Os02t0608400-02:6

General Information
CircRNA Name	Os02g0608400_circ_g.3
ID in PlantcircBase	osa_circ_015422
Alias	Os_ciR7877
Organism	Oryza sativa
Position	chr2: 23868290-23871119 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os02g0608400
Parent gene annotation	EF-Hand type domain containing protein. (Os02t0608400-01);Simila r to Ca2+ binding protein cbp1. (Os02t0608400-02)
Parent gene strand	-
Alternative splicing	Os02g0608400_circ_g.1 Os02g0608400_circ_g.2 Os02g0608400_circ_g.4 Os02g0608400_circ_g.5 Os02g0608400_circ_g.6 Os02g0608400_circ_g.7 Os02g0608400_circ_g.8 Os02g0608400_circ_g.9 Os02g0608400_circ_g.10
Support reads	2/2
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	Os02t0608400-01:6 Os02t0608400-02:6

			
						 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  
						
							CAAACCTAGGTGACCACGTTCACGACAGGCTTGCCGAAGTTCCTCTTCAGAGAGAGACTCAACA
CCCTCAGCTTGAATCATCTTATCGTCATTCTTAATGcttctcaatcagcgccgatgagaccttt
tcttcttcatcaacctcagcagccttgtccgactcttctctagcagccatgtaagctttcttag
cttcctct

									
								

					

						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: 778
Transcript exons: 23868290-23868436,23868553-23868600,23868773-23868991,23
869977-23870148,23870243-23870307,23870993-23871119
CTTCTCAATCAGCGCCGATGAGACCTTTTCTTCTTCATCAACCTCAGCAGCCTTGTCCGACTCT
TCTCTAGCAGCCATGTAAGCTTTCTTAGCTTCCTCTTCACCTTCTGTACCCTCCTTTTCAAGCA
TAGAGTTATACAGTTCAATCTCTTTGTTGACAAGGCTGAGGAACTCTTGACGCTCCTTGCTAAC
AGACGATGCGGATGCCAGTACAGCCAGTGCTCGACTAAAATTACAGAGCTTTTCCTTATCGTGC
TGTTTTGCTTCTCTCAGTTCTTCTTCTTCCCTAGCAGTAGGACCAGTCATTTCCTTCAAAGCCA
AATCTTCTTCAGCAGCCTTTGGTTCTTTGAGTTTGGCCTTTTCTTCTTTCTCTTGTTTCGCTTT
TTCTTCTTTCTCTTTCTTCTTCTCTTCCTCCTTGATAAGTTCTTCCTGCATCTCAAGGAATTCC
AGTTTTCTCCTCCTCTCAGAAACCGAATCTTCAGATGGCAATACGGTCCCAACTGTATCCACAA
CTTCATCTGGTAGAGAAGATAAGGTTGCTACAACAGCCTCCTCAGGCTTCATTTTCCCAGATAC
GGTAAAAGCTCTTGAAAGTATGAGAAGAGAGGATGGCACAGCATGATTAAGTGAGAGATCCAAC
CAATCTCGGAGCTGTTGGCGCATTTCTTCTGTTGACAGCAAACCTAGGTGACCACGTTCACGAC
AGGCTTGCCGAAGTTCCTCTTCAGAGAGAGACTCAACACCCTCAGCTTGAATCATCTTATCGTC
ATTCTTAATG
						
					

						Genomic sequence
						
							CTTCTCAATCAGCGCCGATGAGACCTTTTCTTCTTCATCAACCTCAGCAGCCTTGTCCGACTCT
TCTCTAGCAGCCATGTAAGCTTTCTTAGCTTCCTCTTCACCTTCTGTACCCTCCTTTTCAAGCA
TAGAGTTATACAGTTCAATCTGCATTCAACAAAGACCAAGAGTTATTGAACCCTCCCAAGTATT
TGCAACAAAAATGGAAGATAACTGCATGAACAATTGTCACTCTAATATCACTTTACAAGTTCAT
ATGATACCTCTTTGTTGACAAGGCTGAGGAACTCTTGACGCTCCTTGCTAACAGACTGCAATAT
AAGGAAGTCAGAAAAATGGCCTGTTGAATGCTCATAATTACAGTAAAAGAAATGCATAATTATT
TTCTATCATATAAAAACAGTAGTGGTTCAATAGAATTATAAGGATACTAAAGTCAGTGTATAGT
TACCAAAAGAAAGTATGGACTAACTAGGATCATACCGATGCGGATGCCAGTACAGCCAGTGCTC
GACTAAAATTACAGAGCTTTTCCTTATCGTGCTGTTTTGCTTCTCTCAGTTCTTCTTCTTCCCT
AGCAGTAGGACCAGTCATTTCCTTCAAAGCCAAATCTTCTTCAGCAGCCTTTGGTTCTTTGAGT
TTGGCCTTTTCTTCTTTCTCTTGTTTCGCTTTTTCTTCTTTCTCTTTCTTCTTCTCTTCCTCCT
GAATATTTTCATATCAAAAGCATTAACAATTCAATGTTAGCAATATTATCCTGAAGATAGAACA
ATTGGGCTACAGTTCAACCTAGGGATTTTAGAAGTATCACGCAGAACATAAAATAATTGGGATA
CTGTTTAGTCCTACTTCTAGCAGTATTTTGCTGAAATGAAAGTAATTTGTTTCAGAAAAAGGAA
AAAGCATGTTCCTTCCACAATATTAAACTAAAGTTGACACATCAGATTTCATCAACAGACTTAT
GTTCTTCTCAAGCTAAGTGTAAATACAGCATATTATAGTTCTTACATCCAATGGATTAGCTGAT
AAACAGAAACTTAACAGTCTAAATTTGAGTAAAATTTGTAATGACTCCTCCAAACTTCTTAATA
TGGGCACATAAACAGAAACTTAACAGTCTAACTTTGGCACGTGTGAAAACACACGTCACACAAG
AATCAGTTAATGCATCACAATTTAGATGCACTATCGTATATGTGTTGTTTTCTCCAATTACTCT
TTTTTCAGTCATTCTTTTTTTTGTTCTTCACAAGGAAAAGTTTGAATAGTATAAACCATGTACT
GTTTCTGATATATGCATTACCAAGAGGATATGGAAGATCCTATGAGGTTCAAGCATGAAACCTA
GCAAGGGCACAACAGAACATGCAATACTAAATACTAATACGCCTAACATTCACACAAATCAGAA
TCTGAGAATGCAGAGTGCAGATGATCCATCAGTTGTCCTATAAATGGATGTGTTTCTGAACTAG
GTCAAATACAATTTAATATAAATTAAGATATGGTACATAAAGATTAAACACAGGAAGCATTTTT
AACAGAGGGCAGTTCTGCATCGGCTGATATTTGTACAATCAAAGTGATTTACTGATTTCATAAA
TGCCCCAAGAATAACTGTTTAATTTGCACAAGCAGAAGTGAAATATCTTATGTACATAAAGAAA
GGACCATATTATGTATACATCACCTTGATAAGTTCTTCCTGCATCTCAAGGAATTCCAGTTTTC
TCCTCCTCTCAGAAACCGAATCTTCAGATGGCAATACGGTCCCAACTGTATCCACAACTTCATC
TGGTAGAGAAGATAAGGTTGCTACAACAGCCTCCTCAGGCTTCATTTTCCCAGATACGGTAAAA
GCTCTAACATCACCAGATATGAGTTAGAATCAAGCACGAACAAATCAAACAGCAGTATCATAGC
AAACGAGAAATATGTGATATCAATCAATGTTACCTTGAAAGTATGAGAAGAGAGGATGGCACAG
CATGATTAAGTGAGAGATCCAACCAATCTCGGAGCTGGACAGGAAGCAAAATTACTAGCTTAGA
AAAATATTCAGTTACAAGATAGCAGTTAGTTTTTTGTAACACACAACAGTATGGTTAAAAGCTA
TGTGATCAAGTTTTTTATGTGCTCAATTCAAGGTGGAAATGCAGAAGCTAAGTGCTAGTTACAA
CTTTCCTTCATCTGCCTATCAGACCTAACAGAACATTACCCAAGAAGAAATAATCTAATGAGAT
CATATGTCTCAAACTAATAAGTAATAAACTAAAGAATGAGAAAGTAACAACTAGGACAAATAAT
TTTGCACAGAACAAACATATATTCTTTTGTAGAACAAAACTATAAGCCCGGCATGGAAATTGAT
GGATGGCTCTAATCTATGGAAACACAAAAATGAGTATGCCGCATCACTAGTCATTCTTGACACA
AGAATCAAAGGTGTGTTAAAATGACCGAAGTTAAGCCTAGACATGTGCATGAGATATCATTATC
ACGGATATGTTGTTTGGACTAAATGGACAGTGGATGGAAAAAGGTGTGAACTAATTCGTCCCAA
AAAGGAAGAATGGCATATAATGTGAGAAAGGAATGAATGCCAAGAGTGACGTATAGGCAGCGAG
AGTAACAAATAATTCCAGCAAGTAAAAGAGTGAATAAATTGTGTGGATATGCATATAGCGGAAA
CAATGCAAAACCAACCTGTTGGCGCATTTCTTCTGTTGACAGCAAACCTAGGTGACCACGTTCA
CGACAGGCTTGCCGAAGTTCCTCTTCAGAGAGAGACTCAACACCCTCAGCTTGAATCATCTTAT
CGTCATTCTTAATG
						
					

			
		

Sequences
Splice junction sequence	CAAACCTAGGTGACCACGTTCACGACAGGCTTGCCGAAGTTCCTCTTCAGAGAGAGACTCAACA CCCTCAGCTTGAATCATCTTATCGTCATTCTTAATGcttctcaatcagcgccgatgagaccttt tcttcttcatcaacctcagcagccttgtccgactcttctctagcagccatgtaagctttcttag cttcctct
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: 778 Transcript exons: 23868290-23868436,23868553-23868600,23868773-23868991,23 869977-23870148,23870243-23870307,23870993-23871119 CTTCTCAATCAGCGCCGATGAGACCTTTTCTTCTTCATCAACCTCAGCAGCCTTGTCCGACTCT TCTCTAGCAGCCATGTAAGCTTTCTTAGCTTCCTCTTCACCTTCTGTACCCTCCTTTTCAAGCA TAGAGTTATACAGTTCAATCTCTTTGTTGACAAGGCTGAGGAACTCTTGACGCTCCTTGCTAAC AGACGATGCGGATGCCAGTACAGCCAGTGCTCGACTAAAATTACAGAGCTTTTCCTTATCGTGC TGTTTTGCTTCTCTCAGTTCTTCTTCTTCCCTAGCAGTAGGACCAGTCATTTCCTTCAAAGCCA AATCTTCTTCAGCAGCCTTTGGTTCTTTGAGTTTGGCCTTTTCTTCTTTCTCTTGTTTCGCTTT TTCTTCTTTCTCTTTCTTCTTCTCTTCCTCCTTGATAAGTTCTTCCTGCATCTCAAGGAATTCC AGTTTTCTCCTCCTCTCAGAAACCGAATCTTCAGATGGCAATACGGTCCCAACTGTATCCACAA CTTCATCTGGTAGAGAAGATAAGGTTGCTACAACAGCCTCCTCAGGCTTCATTTTCCCAGATAC GGTAAAAGCTCTTGAAAGTATGAGAAGAGAGGATGGCACAGCATGATTAAGTGAGAGATCCAAC CAATCTCGGAGCTGTTGGCGCATTTCTTCTGTTGACAGCAAACCTAGGTGACCACGTTCACGAC AGGCTTGCCGAAGTTCCTCTTCAGAGAGAGACTCAACACCCTCAGCTTGAATCATCTTATCGTC ATTCTTAATG
Genomic sequence	CTTCTCAATCAGCGCCGATGAGACCTTTTCTTCTTCATCAACCTCAGCAGCCTTGTCCGACTCT TCTCTAGCAGCCATGTAAGCTTTCTTAGCTTCCTCTTCACCTTCTGTACCCTCCTTTTCAAGCA TAGAGTTATACAGTTCAATCTGCATTCAACAAAGACCAAGAGTTATTGAACCCTCCCAAGTATT TGCAACAAAAATGGAAGATAACTGCATGAACAATTGTCACTCTAATATCACTTTACAAGTTCAT ATGATACCTCTTTGTTGACAAGGCTGAGGAACTCTTGACGCTCCTTGCTAACAGACTGCAATAT AAGGAAGTCAGAAAAATGGCCTGTTGAATGCTCATAATTACAGTAAAAGAAATGCATAATTATT TTCTATCATATAAAAACAGTAGTGGTTCAATAGAATTATAAGGATACTAAAGTCAGTGTATAGT TACCAAAAGAAAGTATGGACTAACTAGGATCATACCGATGCGGATGCCAGTACAGCCAGTGCTC GACTAAAATTACAGAGCTTTTCCTTATCGTGCTGTTTTGCTTCTCTCAGTTCTTCTTCTTCCCT AGCAGTAGGACCAGTCATTTCCTTCAAAGCCAAATCTTCTTCAGCAGCCTTTGGTTCTTTGAGT TTGGCCTTTTCTTCTTTCTCTTGTTTCGCTTTTTCTTCTTTCTCTTTCTTCTTCTCTTCCTCCT GAATATTTTCATATCAAAAGCATTAACAATTCAATGTTAGCAATATTATCCTGAAGATAGAACA ATTGGGCTACAGTTCAACCTAGGGATTTTAGAAGTATCACGCAGAACATAAAATAATTGGGATA CTGTTTAGTCCTACTTCTAGCAGTATTTTGCTGAAATGAAAGTAATTTGTTTCAGAAAAAGGAA AAAGCATGTTCCTTCCACAATATTAAACTAAAGTTGACACATCAGATTTCATCAACAGACTTAT GTTCTTCTCAAGCTAAGTGTAAATACAGCATATTATAGTTCTTACATCCAATGGATTAGCTGAT AAACAGAAACTTAACAGTCTAAATTTGAGTAAAATTTGTAATGACTCCTCCAAACTTCTTAATA TGGGCACATAAACAGAAACTTAACAGTCTAACTTTGGCACGTGTGAAAACACACGTCACACAAG AATCAGTTAATGCATCACAATTTAGATGCACTATCGTATATGTGTTGTTTTCTCCAATTACTCT TTTTTCAGTCATTCTTTTTTTTGTTCTTCACAAGGAAAAGTTTGAATAGTATAAACCATGTACT GTTTCTGATATATGCATTACCAAGAGGATATGGAAGATCCTATGAGGTTCAAGCATGAAACCTA GCAAGGGCACAACAGAACATGCAATACTAAATACTAATACGCCTAACATTCACACAAATCAGAA TCTGAGAATGCAGAGTGCAGATGATCCATCAGTTGTCCTATAAATGGATGTGTTTCTGAACTAG GTCAAATACAATTTAATATAAATTAAGATATGGTACATAAAGATTAAACACAGGAAGCATTTTT AACAGAGGGCAGTTCTGCATCGGCTGATATTTGTACAATCAAAGTGATTTACTGATTTCATAAA TGCCCCAAGAATAACTGTTTAATTTGCACAAGCAGAAGTGAAATATCTTATGTACATAAAGAAA GGACCATATTATGTATACATCACCTTGATAAGTTCTTCCTGCATCTCAAGGAATTCCAGTTTTC TCCTCCTCTCAGAAACCGAATCTTCAGATGGCAATACGGTCCCAACTGTATCCACAACTTCATC TGGTAGAGAAGATAAGGTTGCTACAACAGCCTCCTCAGGCTTCATTTTCCCAGATACGGTAAAA GCTCTAACATCACCAGATATGAGTTAGAATCAAGCACGAACAAATCAAACAGCAGTATCATAGC AAACGAGAAATATGTGATATCAATCAATGTTACCTTGAAAGTATGAGAAGAGAGGATGGCACAG CATGATTAAGTGAGAGATCCAACCAATCTCGGAGCTGGACAGGAAGCAAAATTACTAGCTTAGA AAAATATTCAGTTACAAGATAGCAGTTAGTTTTTTGTAACACACAACAGTATGGTTAAAAGCTA TGTGATCAAGTTTTTTATGTGCTCAATTCAAGGTGGAAATGCAGAAGCTAAGTGCTAGTTACAA CTTTCCTTCATCTGCCTATCAGACCTAACAGAACATTACCCAAGAAGAAATAATCTAATGAGAT CATATGTCTCAAACTAATAAGTAATAAACTAAAGAATGAGAAAGTAACAACTAGGACAAATAAT TTTGCACAGAACAAACATATATTCTTTTGTAGAACAAAACTATAAGCCCGGCATGGAAATTGAT GGATGGCTCTAATCTATGGAAACACAAAAATGAGTATGCCGCATCACTAGTCATTCTTGACACA AGAATCAAAGGTGTGTTAAAATGACCGAAGTTAAGCCTAGACATGTGCATGAGATATCATTATC ACGGATATGTTGTTTGGACTAAATGGACAGTGGATGGAAAAAGGTGTGAACTAATTCGTCCCAA AAAGGAAGAATGGCATATAATGTGAGAAAGGAATGAATGCCAAGAGTGACGTATAGGCAGCGAG AGTAACAAATAATTCCAGCAAGTAAAAGAGTGAATAAATTGTGTGGATATGCATATAGCGGAAA CAATGCAAAACCAACCTGTTGGCGCATTTCTTCTGTTGACAGCAAACCTAGGTGACCACGTTCA CGACAGGCTTGCCGAAGTTCCTCTTCAGAGAGAGACTCAACACCCTCAGCTTGAATCATCTTAT CGTCATTCTTAATG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_004079* osi_circ_011983 						
					
						PMCS
						0.228574817

Conservation Information
Conserved circRNAs	osi_circ_004079* osi_circ_011983
PMCS	0.228574817

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23871102-23871116(-)
						
						Potential amino acid sequence
						
							MIQAEGVESLSEEELRQACRERGHLGLLSTEEMRQQLRDWLDLSLNHAVPSSLLILSRAFTVSG
KMKPEEAVVATLSSLPDEVVDTVGTVLPSEDSVSERRRKLEFLEMQEELIKEEEKKKEKEEKAK
QEKEEKAKLKEPKAAEEDLALKEMTGPTAREEEELREAKQHDKEKLCNFSRALAVLASASSVSK
ERQEFLSLVNKEIELYNSMLEKEGTEGEEEAKKAYMAAREESDKAAEVDEEEKVSSALIEKH*(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23871102-23871116(-)
Potential amino acid sequence	MIQAEGVESLSEEELRQACRERGHLGLLSTEEMRQQLRDWLDLSLNHAVPSSLLILSRAFTVSG KMKPEEAVVATLSSLPDEVVDTVGTVLPSEDSVSERRRKLEFLEMQEELIKEEEKKKEKEEKAK QEKEEKAKLKEPKAAEEDLALKEMTGPTAREEEELREAKQHDKEKLCNFSRALAVLASASSVSK ERQEFLSLVNKEIELYNSMLEKEGTEGEEEAKKAYMAAREESDKAAEVDEEEKVSSALIEKH*( -)
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 Os02g0608400_circ_g.3

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