Plant Circular RNA Database

Detail information of Os01g0773100_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0773100_circ_g.3
					
						ID in PlantcircBase
						osa_circ_004135
					
						Alias
						Os_ciR6162
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 32672351-32673988  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Os01g0773100						
					
						Parent gene annotation
						
							Similar to F20D22.3 protein. (Os01t0773100-01);Similar to F20D22
.3 protein. (Os01t0773100-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os01g0773100_circ_g.4 Os01g0773100_circ_g.5 Os01g0773100_circ_g.6 						
					
						Support reads
						2
					
						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  
						
							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
						Os01t0773100-01:6
Os01t0773100-02:6

General Information
CircRNA Name	Os01g0773100_circ_g.3
ID in PlantcircBase	osa_circ_004135
Alias	Os_ciR6162
Organism	Oryza sativa
Position	chr1: 32672351-32673988 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Os01g0773100
Parent gene annotation	Similar to F20D22.3 protein. (Os01t0773100-01);Similar to F20D22 .3 protein. (Os01t0773100-02)
Parent gene strand	+
Alternative splicing	Os01g0773100_circ_g.4 Os01g0773100_circ_g.5 Os01g0773100_circ_g.6
Support reads	2
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	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	Os01t0773100-01:6 Os01t0773100-02:6

			
						 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  
						
							TTTGCAGTCCACAGAACTTCACATCTATACCGACTTCTTAAGAATTGTTCTAGAAATCATCAAT
GCAATTCTTACATATGCATTGCCTAGAAATCCTGAGatgcttaaaagatgagagctcggttcta
ctgctctattctttggtccatgggaactgtgactttcaggaatatgttctggttcgaacagacc
tggatact

									
								

					

						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: 643
Transcript exons: 32672351-32672453,32673023-32673148,32673218-32673331,32
673511-32673629,32673735-32673822,32673896-32673988
ATGCTTAAAAGATGAGAGCTCGGTTCTACTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTT
CAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGCTGATGCCTATCTTGGAAATGCTCT
ACAATGCATCAAGAAAGACCTCCAATCAGATATACATGCTATTGATAGTTCTTCTTATACTCAG
TCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGGTGCTTCCGAGCGTCCCTTGGTACCAT
GAGCGCCTTATGCATCAAACTTCTTTGGGATCTTTGATGGTTGTTATACTAATCCGAACCATCA
AATACAACCTCTCCAAACTGCGAGATGTCTACCTTCATACAAACTGCCTTGCAATTCTAGCAAA
TATGGCCCCTCATGTGCATAGGCTGAGTGCATATGCATCTCAAAGGCTGGTTAGCCTCTTTGAC
ATGCTCTCTCGCAAGTATACCAAATTAGCCGAGTTAAAAAATGACAAAGCTATCAAAGTTATAT
CTGATCAGATTGAAGCAGACAACATCTCAGATGATACGTCCACAGAACTTCACATCTATACCGA
CTTCTTAAGAATTGTTCTAGAAATCATCAATGCAATTCTTACATATGCATTGCCTAGAAATCCT
GAG
						
					

						Genomic sequence
						
							ATGCTTAAAAGATGAGAGCTCGGTTCTACTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTT
CAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGGTATGTTAGCTTAATAACAATATTT
CTGAACCATATTTATTGGAGCACGAGGGCATTCAATACATATCTGGACATATTTGTTTTGGGTT
CATAAAACTGCTCCAATTTTAAGTTCTGTTTCTTTCCAATGTGATGAATAGATGGTATTGGTAT
TTAATGTCTGAAACATTGCAATTTGGGGACTAGATTCCATATTGAAATACACAACAGAACATGA
AATTGCTGGAAAAAATAATAGTCACTTGGGAACTTCCATTGTGTTATATAGCTTCGAACTATGA
ATGGCTTACATTTGCTAAAAGTTATTACGTATATTGACTTGCTGAAATTGCTGTCTTGCTAAAT
ATTAGAACGTTTTTCGCTAAGCTGTTGAAATCCTTATACAACCAGGCAGCTTATAATTGTCTTG
TTCAAAATTCCACAATTTCATCATCAAGCTGCAACTCACGAAATTTGAATTCATCCCCAAATGT
ACTAATATGTAAAAATGTTTTTTATGGACTTGAGCATACCCAAATCCACATTTAACTCAGCCTC
TTACTAATTTATTTTGTAAATTTTGTGAACAGCTGATGCCTATCTTGGAAATGCTCTACAATGC
ATCAAGAAAGACCTCCAATCAGATATACATGCTATTGATAGTTCTTCTTATACTCAGTCAAGAT
TCAACCTTCAATGCTAGTGTACACAAATTGGTAAGCAAGTTGATTTACTATATATTTATATTAT
TCAAAAAGTGTTAATGCTTTTATGTATTATTCTAGGTGCTTCCGAGCGTCCCTTGGTACCATGA
GCGCCTTATGCATCAAACTTCTTTGGGATCTTTGATGGTTGTTATACTAATCCGAACCATCAAA
TACAACCTCTCCAAACTGCGAGTACGTATCAGATTTTTTTGTTGTTTTGTACAGGAAAGTCGAA
GCACTTTGTACTTGATCTTACCTTTTGTGAAGTTCTTTTTTTCATCTTCTTGCTATCCAATGGT
ACAGCCTATACAGTGTACCATGTGCTAACACTAGACATGGTTCTTGTTTACTGACAAGCTTATC
TACTATAGGATGTCTACCTTCATACAAACTGCCTTGCAATTCTAGCAAATATGGCCCCTCATGT
GCATAGGCTGAGTGCATATGCATCTCAAAGGCTGGTTAGCCTCTTTGACATGCTCTCTCGCAAG
TATGCTCGCTCAATCTTTCTCCCAGTTTATTTACCTTGAATCTTTTGTTACATAAGTGACACCT
AAAGTTACCTTATCTTCTGCTTTTATGCAACATTCTTCAGGTATACCAAATTAGCCGAGTTAAA
AAATGACAAAGCTATCAAAGTTATATCTGATCAGATTGAAGCAGACAACATCTCAGATGATACG
GTACTCAACAGTTTGTGCACAATGGCCTTTTTTTAACCCCTTTTTTTCACTAAACAGCGGTTTA
CTTTTGCAGTCCACAGAACTTCACATCTATACCGACTTCTTAAGAATTGTTCTAGAAATCATCA
ATGCAATTCTTACATATGCATTGCCTAGAAATCCTGAG
						
					

			
		

Sequences
Splice junction sequence	TTTGCAGTCCACAGAACTTCACATCTATACCGACTTCTTAAGAATTGTTCTAGAAATCATCAAT GCAATTCTTACATATGCATTGCCTAGAAATCCTGAGatgcttaaaagatgagagctcggttcta ctgctctattctttggtccatgggaactgtgactttcaggaatatgttctggttcgaacagacc tggatact
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: 643 Transcript exons: 32672351-32672453,32673023-32673148,32673218-32673331,32 673511-32673629,32673735-32673822,32673896-32673988 ATGCTTAAAAGATGAGAGCTCGGTTCTACTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTT CAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGCTGATGCCTATCTTGGAAATGCTCT ACAATGCATCAAGAAAGACCTCCAATCAGATATACATGCTATTGATAGTTCTTCTTATACTCAG TCAAGATTCAACCTTCAATGCTAGTGTACACAAATTGGTGCTTCCGAGCGTCCCTTGGTACCAT GAGCGCCTTATGCATCAAACTTCTTTGGGATCTTTGATGGTTGTTATACTAATCCGAACCATCA AATACAACCTCTCCAAACTGCGAGATGTCTACCTTCATACAAACTGCCTTGCAATTCTAGCAAA TATGGCCCCTCATGTGCATAGGCTGAGTGCATATGCATCTCAAAGGCTGGTTAGCCTCTTTGAC ATGCTCTCTCGCAAGTATACCAAATTAGCCGAGTTAAAAAATGACAAAGCTATCAAAGTTATAT CTGATCAGATTGAAGCAGACAACATCTCAGATGATACGTCCACAGAACTTCACATCTATACCGA CTTCTTAAGAATTGTTCTAGAAATCATCAATGCAATTCTTACATATGCATTGCCTAGAAATCCT GAG
Genomic sequence	ATGCTTAAAAGATGAGAGCTCGGTTCTACTGCTCTATTCTTTGGTCCATGGGAACTGTGACTTT CAGGAATATGTTCTGGTTCGAACAGACCTGGATACTTTGGTATGTTAGCTTAATAACAATATTT CTGAACCATATTTATTGGAGCACGAGGGCATTCAATACATATCTGGACATATTTGTTTTGGGTT CATAAAACTGCTCCAATTTTAAGTTCTGTTTCTTTCCAATGTGATGAATAGATGGTATTGGTAT TTAATGTCTGAAACATTGCAATTTGGGGACTAGATTCCATATTGAAATACACAACAGAACATGA AATTGCTGGAAAAAATAATAGTCACTTGGGAACTTCCATTGTGTTATATAGCTTCGAACTATGA ATGGCTTACATTTGCTAAAAGTTATTACGTATATTGACTTGCTGAAATTGCTGTCTTGCTAAAT ATTAGAACGTTTTTCGCTAAGCTGTTGAAATCCTTATACAACCAGGCAGCTTATAATTGTCTTG TTCAAAATTCCACAATTTCATCATCAAGCTGCAACTCACGAAATTTGAATTCATCCCCAAATGT ACTAATATGTAAAAATGTTTTTTATGGACTTGAGCATACCCAAATCCACATTTAACTCAGCCTC TTACTAATTTATTTTGTAAATTTTGTGAACAGCTGATGCCTATCTTGGAAATGCTCTACAATGC ATCAAGAAAGACCTCCAATCAGATATACATGCTATTGATAGTTCTTCTTATACTCAGTCAAGAT TCAACCTTCAATGCTAGTGTACACAAATTGGTAAGCAAGTTGATTTACTATATATTTATATTAT TCAAAAAGTGTTAATGCTTTTATGTATTATTCTAGGTGCTTCCGAGCGTCCCTTGGTACCATGA GCGCCTTATGCATCAAACTTCTTTGGGATCTTTGATGGTTGTTATACTAATCCGAACCATCAAA TACAACCTCTCCAAACTGCGAGTACGTATCAGATTTTTTTGTTGTTTTGTACAGGAAAGTCGAA GCACTTTGTACTTGATCTTACCTTTTGTGAAGTTCTTTTTTTCATCTTCTTGCTATCCAATGGT ACAGCCTATACAGTGTACCATGTGCTAACACTAGACATGGTTCTTGTTTACTGACAAGCTTATC TACTATAGGATGTCTACCTTCATACAAACTGCCTTGCAATTCTAGCAAATATGGCCCCTCATGT GCATAGGCTGAGTGCATATGCATCTCAAAGGCTGGTTAGCCTCTTTGACATGCTCTCTCGCAAG TATGCTCGCTCAATCTTTCTCCCAGTTTATTTACCTTGAATCTTTTGTTACATAAGTGACACCT AAAGTTACCTTATCTTCTGCTTTTATGCAACATTCTTCAGGTATACCAAATTAGCCGAGTTAAA AAATGACAAAGCTATCAAAGTTATATCTGATCAGATTGAAGCAGACAACATCTCAGATGATACG GTACTCAACAGTTTGTGCACAATGGCCTTTTTTTAACCCCTTTTTTTCACTAAACAGCGGTTTA CTTTTGCAGTCCACAGAACTTCACATCTATACCGACTTCTTAAGAATTGTTCTAGAAATCATCA ATGCAATTCTTACATATGCATTGCCTAGAAATCCTGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.244459946

Conservation Information
Conserved circRNAs	NA
PMCS	0.244459946

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							32673027-32672362(+)
32673952-32672362(+)
						
						Potential amino acid sequence
						
							MPILEMLYNASRKTSNQIYMLLIVLLILSQDSTFNASVHKLVLPSVPWYHERLMHQTSLGSLMV
VILIRTIKYNLSKLRDVYLHTNCLAILANMAPHVHRLSAYASQRLVSLFDMLSRKYTKLAELKN
DKAIKVISDQIEADNISDDTSTELHIYTDFLRIVLEIINAILTYALPRNPEMLKR*(+)
MQFLHMHCLEILRCLKDESSVLLLYSLVHGNCDFQEYVLVRTDLDTLLMPILEMLYNASRKTSN
QIYMLLIVLLILSQDSTFNASVHKLVLPSVPWYHERLMHQTSLGSLMVVILIRTIKYNLSKLRD
VYLHTNCLAILANMAPHVHRLSAYASQRLVSLFDMLSRKYTKLAELKNDKAIKVISDQIEADNI
SDDTSTELHIYTDFLRIVLEIINAILTYALPRNPEMLKR*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	32673027-32672362(+) 32673952-32672362(+)
Potential amino acid sequence	MPILEMLYNASRKTSNQIYMLLIVLLILSQDSTFNASVHKLVLPSVPWYHERLMHQTSLGSLMV VILIRTIKYNLSKLRDVYLHTNCLAILANMAPHVHRLSAYASQRLVSLFDMLSRKYTKLAELKN DKAIKVISDQIEADNISDDTSTELHIYTDFLRIVLEIINAILTYALPRNPEMLKR(+) MQFLHMHCLEILRCLKDESSVLLLYSLVHGNCDFQEYVLVRTDLDTLLMPILEMLYNASRKTSN QIYMLLIVLLILSQDSTFNASVHKLVLPSVPWYHERLMHQTSLGSLMVVILIRTIKYNLSKLRD VYLHTNCLAILANMAPHVHRLSAYASQRLVSLFDMLSRKYTKLAELKNDKAIKVISDQIEADNI SDDTSTELHIYTDFLRIVLEIINAILTYALPRNPEMLKR(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015

circRNA

Detail information of Os01g0773100_circ_g.3

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