Plant Circular RNA Database

Detail information of Os05g0144800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0144800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_026551
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 2585472-2587865  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0144800						
					
						Parent gene annotation
						
							Similar to TFIIH basal transcription factor complex helicase sub
unit (EC 3.6.1.-) (DNA-repair protein complementing XP-D cells) 
(Xeroderma pigmentosum group D complementing protein) (CXPD) (DN
A excision repair protein ERCC-2). (Os05t0144800-01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0144800_circ_g.2 						
					
						Support reads
						2
					
						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
						Os05t0144800-01:6

General Information
CircRNA Name	Os05g0144800_circ_g.1
ID in PlantcircBase	osa_circ_026551
Alias	NA
Organism	Oryza sativa
Position	chr5: 2585472-2587865 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0144800
Parent gene annotation	Similar to TFIIH basal transcription factor complex helicase sub unit (EC 3.6.1.-) (DNA-repair protein complementing XP-D cells) (Xeroderma pigmentosum group D complementing protein) (CXPD) (DN A excision repair protein ERCC-2). (Os05t0144800-01)
Parent gene strand	-
Alternative splicing	Os05g0144800_circ_g.2
Support reads	2
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	Os05t0144800-01:6

			
						 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  
						
							TGGCACAGCAGAAGCCATCTCCAGCAAGAGCCGACCATAATTCCTTACAACGCCAGGATCGCTA
CGCATATCAAACTTTGTACTGACAGGTAGCTGGTCActcacgagctatatgcaaagccatatca
gtgctcagatttaggtgcgcatcatgtaagtgtgacagtatccacccaggcagtttagaccgtt
tatcatgg

									
								

					

						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: 661
Transcript exons: 2585472-2585580,2586004-2586080,2586192-2586270,2586455-
2586544,2587176-2587300,2587685-2587865
CTCACGAGCTATATGCAAAGCCATATCAGTGCTCAGATTTAGGTGCGCATCATGTAAGTGTGAC
AGTATCCACCCAGGCAGTTTAGACCGTTTATCATGGCGACTGTATCTCTTGTCAGCAAATATCA
TCATTCCATAATCTGCTTTAGAACGGATCACACGGCCAACACATTGCGCAGCTTGCCTCAAAGC
ATCGAAGGTCAGGAAGTCACCCTCCTTTATTTGAAAAGTTTCTCTTAGGTACTCCAACCTAGCA
AGTAATATCCTGCTGAGTGTGTACTGGAAAGGAACACCAAACATGATCACAAGTCTGCCATAGT
GTCGATCAAAATCAATACCTTCGGCTACTTTGCCCCTGGCAACGGAAAAGAATATAGCACCTCT
TCCACAATCACATGCCTTTCTGTAATTATCAAGAGCCAATGTTGTCTCAACAACATCTGGTGTT
TCAATGAATACCAACTTATGCTGCATGATGTCCTGCAAAATACCCATCTCATTCCAGCTGTTGA
CAATGCCATCCATATAAGAGTAACTGACAAAAAAACAAACTATGCCATCTGGCACAGCAGAAGC
CATCTCCAGCAAGAGCCGACCATAATTCCTTACAACGCCAGGATCGCTACGCATATCAAACTTT
GTACTGACAGGTAGCTGGTCA
						
					

						Genomic sequence
						
							CTCACGAGCTATATGCAAAGCCATATCAGTGCTCAGATTTAGGTGCGCATCATGTAAGTGTGAC
AGTATCCACCCAGGCAGTTTAGACCGTTTATCATGGCGACTGTATCTGCAGGTGAGAAATACCA
TGATATTAACAATCCTGGAGTATGAAAGCTTGGTCACCAGTAAGGCAGGGAAATGGACAGGATG
CGTGTGACAAATTAGAATTGCTTTTTTTTTTTTTGACAGAATCAAATGGAAACATAGAAGACCT
CAGGACCAAAATACCCAAAACAAATTTGCAAGATATATTTAAGTAACTGTCGTTTGTCATAAAG
TAGGATGTGATATCCAAGGCCACATGCTCAATACAAGAAACCGGGAGCCTATTTGTTCAGCATA
TGCAGGTCGAAAATCAGGTTGCTAATCTACGCAGCACAAGAATTGGAGCTTTCTTGTCAACCAT
AGGCAGCTAACTATAACGAGGCTTTCTTGATGATTGGCGAGGTTCTAATTTTCTGAGTTAAAAG
TCAAGGCAGTGATCAAGTACCTCTTGTCAGCAAATATCATCATTCCATAATCTGCTTTAGAACG
GATCACACGGCCAACACATTGCGCAGCTTGCCTCTGGCATTAACAGAATCCAAAATGTCAAGAA
AACTTTGTTGGATGTCTCTAGAAAAATAAAGCTACAAATCATCCAGCCCTACTTTCCCCTGGCA
GAAGTAGTATTATTACCAAAGCATCGAAGGTCAGGAAGTCACCCTCCTTTATTTGAAAAGTTTC
TCTTAGGTACTCCAACCTAGCAAGTAATATCCTGCAAACAGTGTAGACACAAAAGAAGCTGTCA
TTATGCCAGTAAGTATCCATGGATGTTGCTATTGAGTAGATAATGTTTTATAATATGATGAACC
ATTCGTAGGCACAGAAGTAATGCTCAGGTATAGAGATCAAGGGTTGCACAAAAAAATGGATCTT
AAGTTCAGACAATAAGTCCTCACCTGCTGAGTGTGTACTGGAAAGGAACACCAAACATGATCAC
AAGTCTGCCATAGTGTCGATCAAAATCAATACCTTCGGCTACTTTGCCCCTGGATTGAGCATAG
TGGTAGTTAGCTATGAGTCATATGTCCATCATATTATGTAGCCATGAGTCAAGACCACTTAAAC
ATTTATAATAATAACACTTGAACAGAAGTAGCCAATCTACAATATACTGTAATGATGGTAAATT
AGCTCGTGGTGCCTACTGGGTTATGCTTATTGTAGCCTATTGATCAGCCAGATGATGAGCTAAT
GGCAGCAATTTATTTGAGCATTCAGGGACAAGATAATTTTTTTTGCAAGAAATAAACTTAAAAA
CTCAACGTATGAGTTCCTCATGTTTACACATCAATGAAATATTGGTGGATGCCTGATTGAAGCA
TTTTCTGAAATTACTTACTGAATTGCTGTACCAACTAGGACATTCATTTATTTTGGTTAACACA
TAATTACACCTATTTTTGACTAATACTGTCTTCGTTGTTTCGGATATACTAGGAATAAAGAAAC
CATTGGCCAACCAGTAATTATATATCACCTTTGACATAATTATCACCTACTTGGGTCGATGTTA
AAATAGCTGTAATAGTCTCAAGCAATCCAATCAATTGCGAAGCTGAACACTGACACTAAATTTG
AAGGGTGCTTTCCGACAAAACCAATATAAAGTGAACCAACCTGGCAACGGAAAAGAATATAGCA
CCTCTTCCACAATCACATGCCTTTCTGTAATTATCAAGAGCCAATGTTGTCTCAACAACATCTG
GTGTTTCAATGAATACCAACTTATGCTGCATGATGTCCTGCAAATTGAAGTCATAAGATTTTCA
TATTAGGTGCTAATGCATTGCGTGTTATCAAGGCTTTGCCAAGAATGCTGTATTCATGAGAACA
GTAAAAGCATTAATCATGTGAAATCAGCTCAGACAATGCACTTTTTAGCAGTACAATAAACTGC
ACATGTAATAAGAACATTAGAGGCTTAGACACCATATATAGTACTACAAGTGACTGTTCCAGAG
CAGTACTACAAGTTTTTCCAACTGAAACAATGCATTTGTGCAATTGTTAGACTTTATATGGTGA
CATAACGAGATTCAATGTCATAATCCATGAAGAGTTTTGCACTAGATTTATATTCTATAGACTG
CTCGATACCAGAATAATGTACTGGTAAAGAAACTAACCTGCAAAATACCCATCTCATTCCAGCT
GTTGACAATGCCATCCATATAAGAGTAACTGACAAAAAAACAAACTATGCCATCTGGCACAGCA
GAAGCCATCTCCAGCAAGAGCCGACCATAATTCCTTACAACGCCAGGATCGCTACGCATATCAA
ACTTTGTACTGACAGGTAGCTGGTCA
						
					

			
		

Sequences
Splice junction sequence	TGGCACAGCAGAAGCCATCTCCAGCAAGAGCCGACCATAATTCCTTACAACGCCAGGATCGCTA CGCATATCAAACTTTGTACTGACAGGTAGCTGGTCActcacgagctatatgcaaagccatatca gtgctcagatttaggtgcgcatcatgtaagtgtgacagtatccacccaggcagtttagaccgtt tatcatgg
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: 661 Transcript exons: 2585472-2585580,2586004-2586080,2586192-2586270,2586455- 2586544,2587176-2587300,2587685-2587865 CTCACGAGCTATATGCAAAGCCATATCAGTGCTCAGATTTAGGTGCGCATCATGTAAGTGTGAC AGTATCCACCCAGGCAGTTTAGACCGTTTATCATGGCGACTGTATCTCTTGTCAGCAAATATCA TCATTCCATAATCTGCTTTAGAACGGATCACACGGCCAACACATTGCGCAGCTTGCCTCAAAGC ATCGAAGGTCAGGAAGTCACCCTCCTTTATTTGAAAAGTTTCTCTTAGGTACTCCAACCTAGCA AGTAATATCCTGCTGAGTGTGTACTGGAAAGGAACACCAAACATGATCACAAGTCTGCCATAGT GTCGATCAAAATCAATACCTTCGGCTACTTTGCCCCTGGCAACGGAAAAGAATATAGCACCTCT TCCACAATCACATGCCTTTCTGTAATTATCAAGAGCCAATGTTGTCTCAACAACATCTGGTGTT TCAATGAATACCAACTTATGCTGCATGATGTCCTGCAAAATACCCATCTCATTCCAGCTGTTGA CAATGCCATCCATATAAGAGTAACTGACAAAAAAACAAACTATGCCATCTGGCACAGCAGAAGC CATCTCCAGCAAGAGCCGACCATAATTCCTTACAACGCCAGGATCGCTACGCATATCAAACTTT GTACTGACAGGTAGCTGGTCA
Genomic sequence	CTCACGAGCTATATGCAAAGCCATATCAGTGCTCAGATTTAGGTGCGCATCATGTAAGTGTGAC AGTATCCACCCAGGCAGTTTAGACCGTTTATCATGGCGACTGTATCTGCAGGTGAGAAATACCA TGATATTAACAATCCTGGAGTATGAAAGCTTGGTCACCAGTAAGGCAGGGAAATGGACAGGATG CGTGTGACAAATTAGAATTGCTTTTTTTTTTTTTGACAGAATCAAATGGAAACATAGAAGACCT CAGGACCAAAATACCCAAAACAAATTTGCAAGATATATTTAAGTAACTGTCGTTTGTCATAAAG TAGGATGTGATATCCAAGGCCACATGCTCAATACAAGAAACCGGGAGCCTATTTGTTCAGCATA TGCAGGTCGAAAATCAGGTTGCTAATCTACGCAGCACAAGAATTGGAGCTTTCTTGTCAACCAT AGGCAGCTAACTATAACGAGGCTTTCTTGATGATTGGCGAGGTTCTAATTTTCTGAGTTAAAAG TCAAGGCAGTGATCAAGTACCTCTTGTCAGCAAATATCATCATTCCATAATCTGCTTTAGAACG GATCACACGGCCAACACATTGCGCAGCTTGCCTCTGGCATTAACAGAATCCAAAATGTCAAGAA AACTTTGTTGGATGTCTCTAGAAAAATAAAGCTACAAATCATCCAGCCCTACTTTCCCCTGGCA GAAGTAGTATTATTACCAAAGCATCGAAGGTCAGGAAGTCACCCTCCTTTATTTGAAAAGTTTC TCTTAGGTACTCCAACCTAGCAAGTAATATCCTGCAAACAGTGTAGACACAAAAGAAGCTGTCA TTATGCCAGTAAGTATCCATGGATGTTGCTATTGAGTAGATAATGTTTTATAATATGATGAACC ATTCGTAGGCACAGAAGTAATGCTCAGGTATAGAGATCAAGGGTTGCACAAAAAAATGGATCTT AAGTTCAGACAATAAGTCCTCACCTGCTGAGTGTGTACTGGAAAGGAACACCAAACATGATCAC AAGTCTGCCATAGTGTCGATCAAAATCAATACCTTCGGCTACTTTGCCCCTGGATTGAGCATAG TGGTAGTTAGCTATGAGTCATATGTCCATCATATTATGTAGCCATGAGTCAAGACCACTTAAAC ATTTATAATAATAACACTTGAACAGAAGTAGCCAATCTACAATATACTGTAATGATGGTAAATT AGCTCGTGGTGCCTACTGGGTTATGCTTATTGTAGCCTATTGATCAGCCAGATGATGAGCTAAT GGCAGCAATTTATTTGAGCATTCAGGGACAAGATAATTTTTTTTGCAAGAAATAAACTTAAAAA CTCAACGTATGAGTTCCTCATGTTTACACATCAATGAAATATTGGTGGATGCCTGATTGAAGCA TTTTCTGAAATTACTTACTGAATTGCTGTACCAACTAGGACATTCATTTATTTTGGTTAACACA TAATTACACCTATTTTTGACTAATACTGTCTTCGTTGTTTCGGATATACTAGGAATAAAGAAAC CATTGGCCAACCAGTAATTATATATCACCTTTGACATAATTATCACCTACTTGGGTCGATGTTA AAATAGCTGTAATAGTCTCAAGCAATCCAATCAATTGCGAAGCTGAACACTGACACTAAATTTG AAGGGTGCTTTCCGACAAAACCAATATAAAGTGAACCAACCTGGCAACGGAAAAGAATATAGCA CCTCTTCCACAATCACATGCCTTTCTGTAATTATCAAGAGCCAATGTTGTCTCAACAACATCTG GTGTTTCAATGAATACCAACTTATGCTGCATGATGTCCTGCAAATTGAAGTCATAAGATTTTCA TATTAGGTGCTAATGCATTGCGTGTTATCAAGGCTTTGCCAAGAATGCTGTATTCATGAGAACA GTAAAAGCATTAATCATGTGAAATCAGCTCAGACAATGCACTTTTTAGCAGTACAATAAACTGC ACATGTAATAAGAACATTAGAGGCTTAGACACCATATATAGTACTACAAGTGACTGTTCCAGAG CAGTACTACAAGTTTTTCCAACTGAAACAATGCATTTGTGCAATTGTTAGACTTTATATGGTGA CATAACGAGATTCAATGTCATAATCCATGAAGAGTTTTGCACTAGATTTATATTCTATAGACTG CTCGATACCAGAATAATGTACTGGTAAAGAAACTAACCTGCAAAATACCCATCTCATTCCAGCT GTTGACAATGCCATCCATATAAGAGTAACTGACAAAAAAACAAACTATGCCATCTGGCACAGCA GAAGCCATCTCCAGCAAGAGCCGACCATAATTCCTTACAACGCCAGGATCGCTACGCATATCAA ACTTTGTACTGACAGGTAGCTGGTCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_005956* osi_circ_015715 						
					
						PMCS
						0.333188384

Conservation Information
Conserved circRNAs	osi_circ_005956* osi_circ_015715
PMCS	0.333188384

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0144800_circ_g.1

Address

Any questions?

Supported by