Plant Circular RNA Database

Detail information of Os07g0170100_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os07g0170100_circ_g.1
					
						ID in PlantcircBase
						osa_circ_032924
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr7: 3719972-3721821  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os07g0170100						
					
						Parent gene annotation
						
							Similar to Branched chain alpha-keto acid dehydrogenase E1 beta 
subunit. (Os07t0170100-01);Similar to Branched chain alpha-keto 
acid dehydrogenase E1 beta subunit. (Os07t0170100-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os07g0170100_circ_g.2 Os07g0170100_circ_g.3 						
					
						Support reads
						1
					
						Tissues
						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
						Os07t0170100-01:8
Os07t0170100-02:8

General Information
CircRNA Name	Os07g0170100_circ_g.1
ID in PlantcircBase	osa_circ_032924
Alias	NA
Organism	Oryza sativa
Position	chr7: 3719972-3721821 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os07g0170100
Parent gene annotation	Similar to Branched chain alpha-keto acid dehydrogenase E1 beta subunit. (Os07t0170100-01);Similar to Branched chain alpha-keto acid dehydrogenase E1 beta subunit. (Os07t0170100-02)
Parent gene strand	-
Alternative splicing	Os07g0170100_circ_g.2 Os07g0170100_circ_g.3
Support reads	1
Tissues	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	Os07t0170100-01:8 Os07t0170100-02:8

			
						 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  
						
							CGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACA
CCACCGAAACCCACATCTTCCCCGAAGACATAAGAGctttgctgcatcttcgcatgcttcttcc
agtactgcaagttgagctccccaaccaattagtgttatatcacttcctttacgaatcacctaca
agcatgta

									
								

					

						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: 610
Transcript exons: 3719972-3720058,3720137-3720205,3720359-3720448,3720755-
3720852,3720932-3720989,3721322-3721381,3721527-3721562,
3721710-3721821
CTTTGCTGCATCTTCGCATGCTTCTTCCAGTACTGCAAGTTGAGCTCCCCAACCAATTAGTGTT
ATATCACTTCCTTTACGAATCACCTCTGCCTCAGACAAGGGCAGCATATAATCCTCCTCTGGAA
CTTCTTCAACAGCCAAACGGTACAACCACTTTGGCTCAAAAAATACGACTGGATTTGGGTCTCT
AATGCTTGCCAACAACAATCCCTTGGCTTCACGTGGACTTCGAGGTATGATTACCTTGAGTCCA
GGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGACCGACAGCGC
CATAAGGTGATCGAATCGTTAATCCTCCACAGTTAAATTCATTTCCACTCCGGTATCTAAATTT
AGCTGCTTCATTAACAATCTGATCAAAAGCTGGAAAGATATAATCTGCGAACTGGATCTCAGCA
ATAGCTCTATTACCCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGTTCACACAACG
GCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACC
ACCGAAACCCACATCTTCCCCGAAGACATAAGAG
						
					

						Genomic sequence
						
							CTTTGCTGCATCTTCGCATGCTTCTTCCAGTACTGCAAGTTGAGCTCCCCAACCAATTAGTGTT
ATATCACTTCCTTTACGAATCACCTACAAGCATGTAAATCAATATATATGCAGTATGGTTTCTC
CATGACCATAATGATAATTGAAGAAAGATGTGCTCACCTCTGCCTCAGACAAGGGCAGCATATA
ATCCTCCTCTGGAACTTCTTCAACAGCCAAACGGTACAACCACTACAGAAAGAGTGGAACTTGT
TGTAAAAGACTTGATCATTTTTTTTTAAGTAATGTTTCAGTACTTTACAGGAGCGATTCTCACT
CCGTCGTGTGATTATTCTAGCAAATCTTTATCCATTGAGGATCTTTTTTGAATTTTTTTTCCTG
TACCTTTGGCTCAAAAAATACGACTGGATTTGGGTCTCTAATGCTTGCCAACAACAATCCCTTG
GCTTCACGTGGACTTCGAGGTATGATTACCTGAAATTTGTCTTTCATTAGTTTGCAGGAAAATA
ACCATAAATTCCTATGTAAACCATTTGAACTACCCAACCCAAACAAGCTAGTTGGTCCTGAGAT
CAAATCAAGGAGCGGGCTGCACTGGAAGCAATTTACCTTTCAGAGTACCAGTTCAACTTTTAAT
TGCAATATGCATGCCTTGCAGCTAGAGTGTATAAATGTTCGGTACAATACCAATTAGGTCTCTT
CTTGAACAAGTTAATTTGATATTTTACTGTGAAAGGATGGAGGGTCATGAAGAAAGTACGCTGA
AGGCACAAACTTAACCTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGG
TAGTGACCACCATGACCGACAGCGCCATAAGGTGATCGAATCGTTAATCCTACAAAACATGGAT
ACAATCATGAAAATTTCTTCACAGACTACAGAATATTGAATGCTCAGATGTTTGACAAACCAAC
CTCCACAGTTAAATTCATTTCCACTCCGGTATCTAAATTTAGCTGCTTCATTAACAATCTGTAC
CAGTAGTTGTATGTATAAGTATGTTGGCACAAAACATTGATCAAGGCTATACAAATGCAGTCAC
CATGGAAACAAAATAGATTGAAATGTACTGTGCCAGTTGCAGATTTTTTTAAGAATTAAAACTG
TGACAATAAATGGATTTAAAGAATCGAAGCACTTCCTGCTAAGTGAAGCAATAGCATGTGGTAG
TGCCATACAACAAAACGAATATTTCATAAGTTCCTTCATATTGTTAGCACTATGGGAGTAAAGA
AATAACGCATTTTTAGAGACATGAAGCACTATATAGGTAAAGAGAATTTTCAATAAAACCGGAG
GCATGCCTGATCAAAAGCTGGAAAGATATAATCTGCGAACTGGATCTCAGCAATAGCTCTATTA
CCCTGCATGATGAAGAAAATCAGAAAAAAAAATACTACTAGATATTATTTGGCGGTTATATTTT
TATTCTTTTCCATCCCAAAACTGGTAATTGACAATAAAGAATAATAAGAAGCGTTGTACAATTC
AATTTTGTCGCTTGCTCACCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGTTAAGA
AGAGTCAGGTAAAGTGATGATGAACCAATGATATAACAAAACTAGTGCCAAGCATAGCAAACTG
ACAATCCTGAAAATTCATATGGTACACCTCCTATTGTAACAAAAGTTTCAGCAAGAAGCTCAGC
AGAGACTCACCTGTTCACACAACGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAG
CCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG
						
					

			
		

Sequences
Splice junction sequence	CGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACA CCACCGAAACCCACATCTTCCCCGAAGACATAAGAGctttgctgcatcttcgcatgcttcttcc agtactgcaagttgagctccccaaccaattagtgttatatcacttcctttacgaatcacctaca agcatgta
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: 610 Transcript exons: 3719972-3720058,3720137-3720205,3720359-3720448,3720755- 3720852,3720932-3720989,3721322-3721381,3721527-3721562, 3721710-3721821 CTTTGCTGCATCTTCGCATGCTTCTTCCAGTACTGCAAGTTGAGCTCCCCAACCAATTAGTGTT ATATCACTTCCTTTACGAATCACCTCTGCCTCAGACAAGGGCAGCATATAATCCTCCTCTGGAA CTTCTTCAACAGCCAAACGGTACAACCACTTTGGCTCAAAAAATACGACTGGATTTGGGTCTCT AATGCTTGCCAACAACAATCCCTTGGCTTCACGTGGACTTCGAGGTATGATTACCTTGAGTCCA GGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGGTAGTGACCACCATGACCGACAGCGC CATAAGGTGATCGAATCGTTAATCCTCCACAGTTAAATTCATTTCCACTCCGGTATCTAAATTT AGCTGCTTCATTAACAATCTGATCAAAAGCTGGAAAGATATAATCTGCGAACTGGATCTCAGCA ATAGCTCTATTACCCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGTTCACACAACG GCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAGCCCTGTTGTGCAGCGGAAGACACC ACCGAAACCCACATCTTCCCCGAAGACATAAGAG
Genomic sequence	CTTTGCTGCATCTTCGCATGCTTCTTCCAGTACTGCAAGTTGAGCTCCCCAACCAATTAGTGTT ATATCACTTCCTTTACGAATCACCTACAAGCATGTAAATCAATATATATGCAGTATGGTTTCTC CATGACCATAATGATAATTGAAGAAAGATGTGCTCACCTCTGCCTCAGACAAGGGCAGCATATA ATCCTCCTCTGGAACTTCTTCAACAGCCAAACGGTACAACCACTACAGAAAGAGTGGAACTTGT TGTAAAAGACTTGATCATTTTTTTTTAAGTAATGTTTCAGTACTTTACAGGAGCGATTCTCACT CCGTCGTGTGATTATTCTAGCAAATCTTTATCCATTGAGGATCTTTTTTGAATTTTTTTTCCTG TACCTTTGGCTCAAAAAATACGACTGGATTTGGGTCTCTAATGCTTGCCAACAACAATCCCTTG GCTTCACGTGGACTTCGAGGTATGATTACCTGAAATTTGTCTTTCATTAGTTTGCAGGAAAATA ACCATAAATTCCTATGTAAACCATTTGAACTACCCAACCCAAACAAGCTAGTTGGTCCTGAGAT CAAATCAAGGAGCGGGCTGCACTGGAAGCAATTTACCTTTCAGAGTACCAGTTCAACTTTTAAT TGCAATATGCATGCCTTGCAGCTAGAGTGTATAAATGTTCGGTACAATACCAATTAGGTCTCTT CTTGAACAAGTTAATTTGATATTTTACTGTGAAAGGATGGAGGGTCATGAAGAAAGTACGCTGA AGGCACAAACTTAACCTTGAGTCCAGGAACATGACAAAAGAAAGCCTCTGGTGACTGTGAATGG TAGTGACCACCATGACCGACAGCGCCATAAGGTGATCGAATCGTTAATCCTACAAAACATGGAT ACAATCATGAAAATTTCTTCACAGACTACAGAATATTGAATGCTCAGATGTTTGACAAACCAAC CTCCACAGTTAAATTCATTTCCACTCCGGTATCTAAATTTAGCTGCTTCATTAACAATCTGTAC CAGTAGTTGTATGTATAAGTATGTTGGCACAAAACATTGATCAAGGCTATACAAATGCAGTCAC CATGGAAACAAAATAGATTGAAATGTACTGTGCCAGTTGCAGATTTTTTTAAGAATTAAAACTG TGACAATAAATGGATTTAAAGAATCGAAGCACTTCCTGCTAAGTGAAGCAATAGCATGTGGTAG TGCCATACAACAAAACGAATATTTCATAAGTTCCTTCATATTGTTAGCACTATGGGAGTAAAGA AATAACGCATTTTTAGAGACATGAAGCACTATATAGGTAAAGAGAATTTTCAATAAAACCGGAG GCATGCCTGATCAAAAGCTGGAAAGATATAATCTGCGAACTGGATCTCAGCAATAGCTCTATTA CCCTGCATGATGAAGAAAATCAGAAAAAAAAATACTACTAGATATTATTTGGCGGTTATATTTT TATTCTTTTCCATCCCAAAACTGGTAATTGACAATAAAGAATAATAAGAAGCGTTGTACAATTC AATTTTGTCGCTTGCTCACCATTGCTGCTAGACCAACGGCAAATCCAGCAATTCCCTGTTAAGA AGAGTCAGGTAAAGTGATGATGAACCAATGATATAACAAAACTAGTGCCAAGCATAGCAAACTG ACAATCCTGAAAATTCATATGGTACACCTCCTATTGTAACAAAAGTTTCAGCAAGAAGCTCAGC AGAGACTCACCTGTTCACACAACGGCGTATTGAAAACTCTATTCCTGCCAAACCGATCAGCGAG CCCTGTTGTGCAGCGGAAGACACCACCGAAACCCACATCTTCCCCGAAGACATAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.131773937

Conservation Information
Conserved circRNAs	NA
PMCS	0.131773937

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							3719992-3721537(-)
3721531-3721758(-)
3719984-3721758(-)
						
						Potential amino acid sequence
						
							MRRCSKALMSSGKMWVSVVSSAAQQGSLIGLAGIEFSIRRCVNRELLDLPLV*(-)
MGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHGGHYHSQSPEA
FFCHVPGLKVIIPRSPREAKGLLLASIRDPNPVVFFEPKWLYRLAVEEVPEEDYMLPLSEAEVI
RKGSDITLIGWGAQLAVLEEACEDAAKLLCLRGRCGFRWCLPLHNRAR*(-)
MQQSSYVFGEDVGFGGVFRCTTGLADRFGRNRVFNTPLCEQGIAGFAVGLAAMGNRAIAEIQFA
DYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHGGHYHSQSPEAFFCHVPGLKVII
PRSPREAKGLLLASIRDPNPVVFFEPKWLYRLAVEEVPEEDYMLPLSEAEVIRKGSDITLIGWG
AQLAVLEEACEDAAKLLCLRGRCGFRWCLPLHNRAR*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	3719992-3721537(-) 3721531-3721758(-) 3719984-3721758(-)
Potential amino acid sequence	MRRCSKALMSSGKMWVSVVSSAAQQGSLIGLAGIEFSIRRCVNRELLDLPLV(-) MGNRAIAEIQFADYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHGGHYHSQSPEA FFCHVPGLKVIIPRSPREAKGLLLASIRDPNPVVFFEPKWLYRLAVEEVPEEDYMLPLSEAEVI RKGSDITLIGWGAQLAVLEEACEDAAKLLCLRGRCGFRWCLPLHNRAR(-) MQQSSYVFGEDVGFGGVFRCTTGLADRFGRNRVFNTPLCEQGIAGFAVGLAAMGNRAIAEIQFA DYIFPAFDQIVNEAAKFRYRSGNEFNCGGLTIRSPYGAVGHGGHYHSQSPEAFFCHVPGLKVII PRSPREAKGLLLASIRDPNPVVFFEPKWLYRLAVEEVPEEDYMLPLSEAEVIRKGSDITLIGWG AQLAVLEEACEDAAKLLCLRGRCGFRWCLPLHNRAR*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os07g0170100_circ_g.1

Address

Any questions?

Supported by