Plant Circular RNA Database

Detail information of Os05g0144200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0144200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_026539
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 2543365-2545206  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os05g0144150						
					
						Parent gene annotation
						
							Hypothetical gene. (Os05t0144150-00)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os05g0144200_circ_g.1 Os05g0144200_circ_g.2 Os05g0144200_circ_g.4 Os05g0144200_circ_g.5 Os05g0144200_circ_g.6 						
					
						Support reads
						1
					
						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  
						
							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
						Os05t0144200-01:6
Os05t0144200-01:6
Os05t0144150-00:6

General Information
CircRNA Name	Os05g0144200_circ_g.3
ID in PlantcircBase	osa_circ_026539
Alias	NA
Organism	Oryza sativa
Position	chr5: 2543365-2545206 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ui-circRNA
Identification method	CIRCexplorer
Parent gene	Os05g0144150
Parent gene annotation	Hypothetical gene. (Os05t0144150-00)
Parent gene strand	+
Alternative splicing	Os05g0144200_circ_g.1 Os05g0144200_circ_g.2 Os05g0144200_circ_g.4 Os05g0144200_circ_g.5 Os05g0144200_circ_g.6
Support reads	1
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	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	Os05t0144200-01:6 Os05t0144200-01:6 Os05t0144150-00:6

			
						 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  
						
							GAAGACGGGACTGGTTGTACATATGGATTCCGCTTCAATACACTCTCATGATATAGAACCTTCT
CTCTCTTCTTCTCAATCTTCCTTTGGACAGGAATATctatctatttcctttgaaagattttcca
tcttctttgcttcagcttctgctcttaacctctccttacgacgagctcttttgttcagttctac
tcttgtaa

									
								

					

						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: 649
Transcript exons: 2543365-2543484,2543954-2544039,2544357-2544467,2544591-
2544671,2544872-2544943,2545028-2545206
CTATCTATTTCCTTTGAAAGATTTTCCATCTTCTTTGCTTCAGCTTCTGCTCTTAACCTCTCCT
TACGACGAGCTCTTTTGTTCAGTTCTACTCTTGTAACTCTTTTCGTTTTAGTTTTCCTCTGAAC
AGCCAAAGCATCAGCAGCCTGGTCTTCATCACCTTCTTCAACAGCTTCATCTCCATCATCCGCA
TCAAGAAAAAATTTATCTTCTTCAGTGATTGCTTCACCAGGAACAATAAGTGGCACAGGTTTGG
GCCCTAACTCTTTCGTGTAGATTTTACGCATCTCATCAGCAACAGCTTGAGCAAGAGAATCCTG
ATGTGCTTCGAATGGGGGATTAAATGAACATCCTGGGGCCTCAACTTCAACAGCAGGAATCACA
GATGCGGTAGACCTCTTTTTAGCCTTGTGATCTCCTTTAACATCTTCACCCCAGATGTCAAGGA
TCTTATCACCTGAATCATCTTCCATGGGAACAATTTTCGCTTCCTGTGTCTCTTTCGATTCCTT
CTTCTTTGACTTCTTCTTATCCTTCTTTGTCGTTAAAGAAGACGGGACTGGTTGTACATATGGA
TTCCGCTTCAATACACTCTCATGATATAGAACCTTCTCTCTCTTCTTCTCAATCTTCCTTTGGA
CAGGAATAT
						
					

						Genomic sequence
						
							CTATCTATTTCCTTTGAAAGATTTTCCATCTTCTTTGCTTCAGCTTCTGCTCTTAACCTCTCCT
TACGACGAGCTCTTTTGTTCAGTTCTACTCTTGTAACTCTTTTCGTTTTAGTTTTCCTGAAAAA
ATAATAAATCATACAATCAAAAGTACACTCTAATAGTGTTTGCAAGACAAATTTAAAATTTACT
GAGTCAGAACAGTGTGTTTTGTTCATCAAGAACAGCACATGGTAATTCCAGAATTCTTAAGTTA
TAAGCTGTGACTTTCATGGTTATTTTCACAAATACAGTAAACCTGAATTCTAATATAATTACTT
AGCAAGTGCCACATAGCAATTGAGGAATATAAAAACTCTAAACAGGGATAACCCATATTTTGCC
CCATTAGCTTATTATCATATAGAAATGGAAAAAGATATATTAAAACATAAAAGCTTTGAAAATA
TATATTAAGGGCATAGTGACCATGTTATCCCTAAAAGCATGTAAAAGCTTTGGAAATTTAAGCA
TCACGCATAAGTCTATCGTACAGCATAAGTGCATAACCTATTAAAACTATACTTCCAATAGAAC
AGTCGAATCTAACCTCTGAACAGCCAAAGCATCAGCAGCCTGGTCTTCATCACCTTCTTCAACA
GCTTCATCTCCATCATCCGCATCAAGAAAAAATTTCTGTAGGCAACATGCAGAAAAAAGGTATA
AGTAAGATTGTACGCAAAAATGCTACATAGACATCACAAGCACAATCCACTAGTAAGGTGAAGG
CCTGAAGGGCCATGCTATTCTAAATGAATATACCACAGAACATACTGGCATTGTATATGGAATC
CAACTCCAAAAATACTCAACTCATAATACACAACGAAGTTCACAAAAAGGCAGTTTTCATTGCA
AAGTAACTAAAAAGTTGAGAGCGCGTGTAACATTTCCAAGACATGAGAATATAGAAATTTCAAC
CATCTATTGGCAAAGAGATGCATAAGACTTACATCTTCTTCAGTGATTGCTTCACCAGGAACAA
TAAGTGGCACAGGTTTGGGCCCTAACTCTTTCGTGTAGATTTTACGCATCTCATCAGCAACAGC
TTGAGCAAGAGAATCCTACAATGTCAACAGGATTTTGTTGTTAAATATAAGTGCTAAGATATCC
ACTAATATAAGGATCATCAGTTCCTAAAACATGGGTAACATTGCCAAATCCGGAACATAAATTA
CAAAACATACCTGATGTGCTTCGAATGGGGGATTAAATGAACATCCTGGGGCCTCAACTTCAAC
AGCAGGAATCACAGATGCGGTAGACCTCTGCAACAAAAATGATAAAAAGAAAAAAAAAGAAACT
AACAAATTAAAATTGATATACAAAACCCACAAATTCAGCATATTGCAACAGAAGAGATTTGTAA
ATTTTGAAAAATATGACTGCATAGTTCTAAAAATCGACTTTTTGTAATACAAATAGAGAAAGTG
AAAACAGATTAACAGAATGCGGAGCATAGCAACACCTTTTTAGCCTTGTGATCTCCTTTAACAT
CTTCACCCCAGATGTCAAGGATCTTATCACCTGAATCATCTTCCTGTAAAACAGATGAGTCCAC
CTTAGCAACCTGGGACTTGAACAAAAGGAAATTCATTTTGTCTCAAATAAAAGCAATTGATACC
ATGGGAACAATTTTCGCTTCCTGTGTCTCTTTCGATTCCTTCTTCTTTGACTTCTTCTTATCCT
TCTTTGTCGTTAAAGAAGACGGGACTGGTTGTACATATGGATTCCGCTTCAATACACTCTCATG
ATATAGAACCTTCTCTCTCTTCTTCTCAATCTTCCTTTGGACAGGAATAT
						
					

			
		

Sequences
Splice junction sequence	GAAGACGGGACTGGTTGTACATATGGATTCCGCTTCAATACACTCTCATGATATAGAACCTTCT CTCTCTTCTTCTCAATCTTCCTTTGGACAGGAATATctatctatttcctttgaaagattttcca tcttctttgcttcagcttctgctcttaacctctccttacgacgagctcttttgttcagttctac tcttgtaa
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: 649 Transcript exons: 2543365-2543484,2543954-2544039,2544357-2544467,2544591- 2544671,2544872-2544943,2545028-2545206 CTATCTATTTCCTTTGAAAGATTTTCCATCTTCTTTGCTTCAGCTTCTGCTCTTAACCTCTCCT TACGACGAGCTCTTTTGTTCAGTTCTACTCTTGTAACTCTTTTCGTTTTAGTTTTCCTCTGAAC AGCCAAAGCATCAGCAGCCTGGTCTTCATCACCTTCTTCAACAGCTTCATCTCCATCATCCGCA TCAAGAAAAAATTTATCTTCTTCAGTGATTGCTTCACCAGGAACAATAAGTGGCACAGGTTTGG GCCCTAACTCTTTCGTGTAGATTTTACGCATCTCATCAGCAACAGCTTGAGCAAGAGAATCCTG ATGTGCTTCGAATGGGGGATTAAATGAACATCCTGGGGCCTCAACTTCAACAGCAGGAATCACA GATGCGGTAGACCTCTTTTTAGCCTTGTGATCTCCTTTAACATCTTCACCCCAGATGTCAAGGA TCTTATCACCTGAATCATCTTCCATGGGAACAATTTTCGCTTCCTGTGTCTCTTTCGATTCCTT CTTCTTTGACTTCTTCTTATCCTTCTTTGTCGTTAAAGAAGACGGGACTGGTTGTACATATGGA TTCCGCTTCAATACACTCTCATGATATAGAACCTTCTCTCTCTTCTTCTCAATCTTCCTTTGGA CAGGAATAT
Genomic sequence	CTATCTATTTCCTTTGAAAGATTTTCCATCTTCTTTGCTTCAGCTTCTGCTCTTAACCTCTCCT TACGACGAGCTCTTTTGTTCAGTTCTACTCTTGTAACTCTTTTCGTTTTAGTTTTCCTGAAAAA ATAATAAATCATACAATCAAAAGTACACTCTAATAGTGTTTGCAAGACAAATTTAAAATTTACT GAGTCAGAACAGTGTGTTTTGTTCATCAAGAACAGCACATGGTAATTCCAGAATTCTTAAGTTA TAAGCTGTGACTTTCATGGTTATTTTCACAAATACAGTAAACCTGAATTCTAATATAATTACTT AGCAAGTGCCACATAGCAATTGAGGAATATAAAAACTCTAAACAGGGATAACCCATATTTTGCC CCATTAGCTTATTATCATATAGAAATGGAAAAAGATATATTAAAACATAAAAGCTTTGAAAATA TATATTAAGGGCATAGTGACCATGTTATCCCTAAAAGCATGTAAAAGCTTTGGAAATTTAAGCA TCACGCATAAGTCTATCGTACAGCATAAGTGCATAACCTATTAAAACTATACTTCCAATAGAAC AGTCGAATCTAACCTCTGAACAGCCAAAGCATCAGCAGCCTGGTCTTCATCACCTTCTTCAACA GCTTCATCTCCATCATCCGCATCAAGAAAAAATTTCTGTAGGCAACATGCAGAAAAAAGGTATA AGTAAGATTGTACGCAAAAATGCTACATAGACATCACAAGCACAATCCACTAGTAAGGTGAAGG CCTGAAGGGCCATGCTATTCTAAATGAATATACCACAGAACATACTGGCATTGTATATGGAATC CAACTCCAAAAATACTCAACTCATAATACACAACGAAGTTCACAAAAAGGCAGTTTTCATTGCA AAGTAACTAAAAAGTTGAGAGCGCGTGTAACATTTCCAAGACATGAGAATATAGAAATTTCAAC CATCTATTGGCAAAGAGATGCATAAGACTTACATCTTCTTCAGTGATTGCTTCACCAGGAACAA TAAGTGGCACAGGTTTGGGCCCTAACTCTTTCGTGTAGATTTTACGCATCTCATCAGCAACAGC TTGAGCAAGAGAATCCTACAATGTCAACAGGATTTTGTTGTTAAATATAAGTGCTAAGATATCC ACTAATATAAGGATCATCAGTTCCTAAAACATGGGTAACATTGCCAAATCCGGAACATAAATTA CAAAACATACCTGATGTGCTTCGAATGGGGGATTAAATGAACATCCTGGGGCCTCAACTTCAAC AGCAGGAATCACAGATGCGGTAGACCTCTGCAACAAAAATGATAAAAAGAAAAAAAAAGAAACT AACAAATTAAAATTGATATACAAAACCCACAAATTCAGCATATTGCAACAGAAGAGATTTGTAA ATTTTGAAAAATATGACTGCATAGTTCTAAAAATCGACTTTTTGTAATACAAATAGAGAAAGTG AAAACAGATTAACAGAATGCGGAGCATAGCAACACCTTTTTAGCCTTGTGATCTCCTTTAACAT CTTCACCCCAGATGTCAAGGATCTTATCACCTGAATCATCTTCCTGTAAAACAGATGAGTCCAC CTTAGCAACCTGGGACTTGAACAAAAGGAAATTCATTTTGTCTCAAATAAAAGCAATTGATACC ATGGGAACAATTTTCGCTTCCTGTGTCTCTTTCGATTCCTTCTTCTTTGACTTCTTCTTATCCT TCTTTGTCGTTAAAGAAGACGGGACTGGTTGTACATATGGATTCCGCTTCAATACACTCTCATG ATATAGAACCTTCTCTCTCTTCTTCTCAATCTTCCTTTGGACAGGAATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.220785491

Conservation Information
Conserved circRNAs	NA
PMCS	0.220785491

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2545130-2543956(+)
2545032-2545184(-)
						
						Potential amino acid sequence
						
							MDSASIHSHDIEPSLSSSQSSFGQEYLSISFERFSIFFASASALNLSLRRALLFSSTLVTLFVL
VFL*(+)
MEDDSGDKILDIWGEDVKGDHKAKKRSTASVIPAVEVEAPGCSFNPPFEAHQDSLAQAVADEMR
KIYTKELGPKPVPLIVPGEAITEEDKFFLDADDGDEAVEEGDEDQAADALAVQRKTKTKRVTRV
ELNKRARRKERLRAEAEAKKMENLSKEIDRYSCPKED*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2545130-2543956(+) 2545032-2545184(-)
Potential amino acid sequence	MDSASIHSHDIEPSLSSSQSSFGQEYLSISFERFSIFFASASALNLSLRRALLFSSTLVTLFVL VFL(+) MEDDSGDKILDIWGEDVKGDHKAKKRSTASVIPAVEVEAPGCSFNPPFEAHQDSLAQAVADEMR KIYTKELGPKPVPLIVPGEAITEEDKFFLDADDGDEAVEEGDEDQAADALAVQRKTKTKRVTRV ELNKRARRKERLRAEAEAKKMENLSKEIDRYSCPKED(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0144200_circ_g.3

Address

Any questions?

Supported by