Plant Circular RNA Database

Detail information of Os05g0393800_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0393800_circ_g.1
					
						ID in PlantcircBase
						osa_circ_027775
					
						Alias
						Os_ciR9871
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 19160714-19162568  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0393800						
					
						Parent gene annotation
						
							Protein of unknown function DUF221 domain containing protein. (O
s05t0393800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						2/1
					
						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  
						
							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
						Os05t0393800-01:4

General Information
CircRNA Name	Os05g0393800_circ_g.1
ID in PlantcircBase	osa_circ_027775
Alias	Os_ciR9871
Organism	Oryza sativa
Position	chr5: 19160714-19162568 JBrowse»
Reference genome	IRGSP-1.0.38
Type	ue-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0393800
Parent gene annotation	Protein of unknown function DUF221 domain containing protein. (O s05t0393800-01)
Parent gene strand	+
Alternative splicing	NA
Support reads	2/1
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	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	Os05t0393800-01:4

			
						 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  
						
							CCTGGTGAGAAATGTACCACCTGACCCAGATGAAACAGTTAGTGAGCATGTTGAGCACTTCTTT
GCTGTCAATCATCGTGATCATTATCTCAGTCACCAGataccagctctaccaacaactcccgtta
cttctctgtatgatgcctgttctgaactgagtcttcatagatagagagaaatgggttctctcac
agatatcg

									
								

					

						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: 780
Transcript exons: 19160714-19161105,19161265-19161414,19162191-19162326,19
162467-19162568
ATACCAGCTCTACCAACAACTCCCGTTACTTCTCTGTATGATGCCTGTTCTGAACTGAGTCTTC
ATAGATAGAGAGAAATGGGTTCTCTCACAGATATCGGCGTCGCCGCAGGAATAAACATACTGTC
CGCATTGGGTTTTCTTCTCGCATTTGCGGTTCTCAGGATACAGCCTATCAACGACAGGGTCTAC
TTTCCCAAATGGTACCTCAAAGGGACAAGAAGCAGCCCAAGAAGCATGGGAACGGTTTTCTCAA
AGTTTGTCAATGCTGATCTCTCGACGTATATCCGCTTCCTGAATTGGATGCCTGCAGCGCTGCA
AATGCCTGAGCCCGAGTTGATTGAGCACGCAGGCCTCGACTCCGCGGTATATGTCCGCATATAT
CTTCTTGGGTTAAAAATATTTGTGCCGATTGCTGTGCTGGCATTCATTGTCCTTGTTCCTATCA
ACTGGGCTAGTGGAACTTTGGAGAAGGAAAAGAGTCTAAGTTATGATCAAATTGACAAGCTTTC
AATATCTAACCTTGGAAAAGGATCGAAAAGATTTTGGGCACACATAGTGATGGCCTATGTATTT
ACGTTTTGGACGTTTTTCGTGTTGTATCGTGAATACAAGGTTGTAACAACTATGAGATTGCGCT
TTCTTGCTATTCAGAATCGTCGAGCTGATCAGTTTACGGTCCTGGTGAGAAATGTACCACCTGA
CCCAGATGAAACAGTTAGTGAGCATGTTGAGCACTTCTTTGCTGTCAATCATCGTGATCATTAT
CTCAGTCACCAG
						
					

						Genomic sequence
						
							ATACCAGCTCTACCAACAACTCCCGTTACTTCTCTGTATGATGCCTGTTCTGAACTGAGTCTTC
ATAGATAGAGAGAAATGGGTTCTCTCACAGATATCGGCGTCGCCGCAGGAATAAACATACTGTC
CGCATTGGGTTTTCTTCTCGCATTTGCGGTTCTCAGGATACAGCCTATCAACGACAGGGTCTAC
TTTCCCAAATGGTACCTCAAAGGGACAAGAAGCAGCCCAAGAAGCATGGGAACGGTTTTCTCAA
AGTTTGTCAATGCTGATCTCTCGACGTATATCCGCTTCCTGAATTGGATGCCTGCAGCGCTGCA
AATGCCTGAGCCCGAGTTGATTGAGCACGCAGGCCTCGACTCCGCGGTATATGTCCGCATATAT
CTTCTTGGGTGAGCATGCTGTTCGTGTTTCGCAATTGGTCTTTTTTTTTGTCTTTAAAGTTTCC
GAAAAGGTTGAATTCAACTGATAAATGTGACTATATGATTTGGATTGGATGTCAGAACATATTC
GGTGTATTATGCTTACTGCATAGTTCTCTTGCTATGCAGGTTAAAAATATTTGTGCCGATTGCT
GTGCTGGCATTCATTGTCCTTGTTCCTATCAACTGGGCTAGTGGAACTTTGGAGAAGGAAAAGA
GTCTAAGTTATGATCAAATTGACAAGCTTTCAATATCTAACCTTGGAAAAGGATCGAAAAGGTA
TAATTCTCTGTGCTTCATGTGTGTGTCCTAATGCTTGCCGCACCACCATGGATCGTGCCTTTGT
TTCTTTGAATAATTACCTGTGTCGCGTATAATGTTACCGCTAGTCTTTACTTCTCATTCACGGT
ATAATGCATACCATCATATCCTTCGAACAAGATAATGACATTGAAGGTTTCCTTTCCTATCTGT
ACTTTGAAAAATTGGCGGTCAGACATTTTGGAATTTTGTGAATATGTTTGAAGTTTTTCAATAT
CGGTGCACTATTAGATACTTTCAATAAATTTAGTACAAAAATATTTATGCAGTGATAACCTATG
CTTAACCTAAAATTGTAACAATTAATGGAGACTGGTGTGACTAATAATCCAAACTGGACCTCTT
CGAAATTGATGCATGTTCTAACTTTTTCACATAAATCTGCTCTATTAATACAGAAGTGGCAAAC
CTTCTGCCCTTTCTTCAAAAAGAAAAAAAAGCTTTTCACATAAATGAATGCAAAGGCTTTGCCT
CCAAATAATTTCCCAATTATCGATGATTATTCTAGCATTTAGTCATCATCACTTTTATCAAATC
AGTTTTTATGATGCTCTAGCACTAGAATTTGATCAGGCTCTTGCGGTATTTTTCTAACCAACAC
AAATGCCTACTAATTAGTTTTTTTTCGTTGTCAATTTCACTAGTGAGAGTTTAGCCGAATTTAT
ATCTTGTGTTCGATATCCTGATAGGCTGATAATTTCTCTAATGAATTTATGTTTTTTCCCTGTC
AATAGATTTTGGGCACACATAGTGATGGCCTATGTATTTACGTTTTGGACGTTTTTCGTGTTGT
ATCGTGAATACAAGGTTGTAACAACTATGAGATTGCGCTTTCTTGCTATTCAGAATCGTCGAGC
TGATCAGTTTACGGTGAGAGATCTTTCCCGTAACACTCAGATCAACGAATTTAAACTTCTTTAC
TAGATTATTTCAACTTTGCAACTTATTATATAGTTATGCTTCTTTTTTTTTTTGAATTTACGGC
GGTGAAAATTTTCTTATTTATCTAGGTCCTGGTGAGAAATGTACCACCTGACCCAGATGAAACA
GTTAGTGAGCATGTTGAGCACTTCTTTGCTGTCAATCATCGTGATCATTATCTCAGTCACCAG
						
					

			
		

Sequences
Splice junction sequence	CCTGGTGAGAAATGTACCACCTGACCCAGATGAAACAGTTAGTGAGCATGTTGAGCACTTCTTT GCTGTCAATCATCGTGATCATTATCTCAGTCACCAGataccagctctaccaacaactcccgtta cttctctgtatgatgcctgttctgaactgagtcttcatagatagagagaaatgggttctctcac agatatcg
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: 780 Transcript exons: 19160714-19161105,19161265-19161414,19162191-19162326,19 162467-19162568 ATACCAGCTCTACCAACAACTCCCGTTACTTCTCTGTATGATGCCTGTTCTGAACTGAGTCTTC ATAGATAGAGAGAAATGGGTTCTCTCACAGATATCGGCGTCGCCGCAGGAATAAACATACTGTC CGCATTGGGTTTTCTTCTCGCATTTGCGGTTCTCAGGATACAGCCTATCAACGACAGGGTCTAC TTTCCCAAATGGTACCTCAAAGGGACAAGAAGCAGCCCAAGAAGCATGGGAACGGTTTTCTCAA AGTTTGTCAATGCTGATCTCTCGACGTATATCCGCTTCCTGAATTGGATGCCTGCAGCGCTGCA AATGCCTGAGCCCGAGTTGATTGAGCACGCAGGCCTCGACTCCGCGGTATATGTCCGCATATAT CTTCTTGGGTTAAAAATATTTGTGCCGATTGCTGTGCTGGCATTCATTGTCCTTGTTCCTATCA ACTGGGCTAGTGGAACTTTGGAGAAGGAAAAGAGTCTAAGTTATGATCAAATTGACAAGCTTTC AATATCTAACCTTGGAAAAGGATCGAAAAGATTTTGGGCACACATAGTGATGGCCTATGTATTT ACGTTTTGGACGTTTTTCGTGTTGTATCGTGAATACAAGGTTGTAACAACTATGAGATTGCGCT TTCTTGCTATTCAGAATCGTCGAGCTGATCAGTTTACGGTCCTGGTGAGAAATGTACCACCTGA CCCAGATGAAACAGTTAGTGAGCATGTTGAGCACTTCTTTGCTGTCAATCATCGTGATCATTAT CTCAGTCACCAG
Genomic sequence	ATACCAGCTCTACCAACAACTCCCGTTACTTCTCTGTATGATGCCTGTTCTGAACTGAGTCTTC ATAGATAGAGAGAAATGGGTTCTCTCACAGATATCGGCGTCGCCGCAGGAATAAACATACTGTC CGCATTGGGTTTTCTTCTCGCATTTGCGGTTCTCAGGATACAGCCTATCAACGACAGGGTCTAC TTTCCCAAATGGTACCTCAAAGGGACAAGAAGCAGCCCAAGAAGCATGGGAACGGTTTTCTCAA AGTTTGTCAATGCTGATCTCTCGACGTATATCCGCTTCCTGAATTGGATGCCTGCAGCGCTGCA AATGCCTGAGCCCGAGTTGATTGAGCACGCAGGCCTCGACTCCGCGGTATATGTCCGCATATAT CTTCTTGGGTGAGCATGCTGTTCGTGTTTCGCAATTGGTCTTTTTTTTTGTCTTTAAAGTTTCC GAAAAGGTTGAATTCAACTGATAAATGTGACTATATGATTTGGATTGGATGTCAGAACATATTC GGTGTATTATGCTTACTGCATAGTTCTCTTGCTATGCAGGTTAAAAATATTTGTGCCGATTGCT GTGCTGGCATTCATTGTCCTTGTTCCTATCAACTGGGCTAGTGGAACTTTGGAGAAGGAAAAGA GTCTAAGTTATGATCAAATTGACAAGCTTTCAATATCTAACCTTGGAAAAGGATCGAAAAGGTA TAATTCTCTGTGCTTCATGTGTGTGTCCTAATGCTTGCCGCACCACCATGGATCGTGCCTTTGT TTCTTTGAATAATTACCTGTGTCGCGTATAATGTTACCGCTAGTCTTTACTTCTCATTCACGGT ATAATGCATACCATCATATCCTTCGAACAAGATAATGACATTGAAGGTTTCCTTTCCTATCTGT ACTTTGAAAAATTGGCGGTCAGACATTTTGGAATTTTGTGAATATGTTTGAAGTTTTTCAATAT CGGTGCACTATTAGATACTTTCAATAAATTTAGTACAAAAATATTTATGCAGTGATAACCTATG CTTAACCTAAAATTGTAACAATTAATGGAGACTGGTGTGACTAATAATCCAAACTGGACCTCTT CGAAATTGATGCATGTTCTAACTTTTTCACATAAATCTGCTCTATTAATACAGAAGTGGCAAAC CTTCTGCCCTTTCTTCAAAAAGAAAAAAAAGCTTTTCACATAAATGAATGCAAAGGCTTTGCCT CCAAATAATTTCCCAATTATCGATGATTATTCTAGCATTTAGTCATCATCACTTTTATCAAATC AGTTTTTATGATGCTCTAGCACTAGAATTTGATCAGGCTCTTGCGGTATTTTTCTAACCAACAC AAATGCCTACTAATTAGTTTTTTTTCGTTGTCAATTTCACTAGTGAGAGTTTAGCCGAATTTAT ATCTTGTGTTCGATATCCTGATAGGCTGATAATTTCTCTAATGAATTTATGTTTTTTCCCTGTC AATAGATTTTGGGCACACATAGTGATGGCCTATGTATTTACGTTTTGGACGTTTTTCGTGTTGT ATCGTGAATACAAGGTTGTAACAACTATGAGATTGCGCTTTCTTGCTATTCAGAATCGTCGAGC TGATCAGTTTACGGTGAGAGATCTTTCCCGTAACACTCAGATCAACGAATTTAAACTTCTTTAC TAGATTATTTCAACTTTGCAACTTATTATATAGTTATGCTTCTTTTTTTTTTTGAATTTACGGC GGTGAAAATTTTCTTATTTATCTAGGTCCTGGTGAGAAATGTACCACCTGACCCAGATGAAACA GTTAGTGAGCATGTTGAGCACTTCTTTGCTGTCAATCATCGTGATCATTATCTCAGTCACCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.249334191

Conservation Information
Conserved circRNAs	NA
PMCS	0.249334191

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19160793-19160782(+)
19162481-19160768(+)
						
						Potential amino acid sequence
						
							MGSLTDIGVAAGINILSALGFLLAFAVLRIQPINDRVYFPKWYLKGTRSSPRSMGTVFSKFVNA
DLSTYIRFLNWMPAALQMPEPELIEHAGLDSAVYVRIYLLGLKIFVPIAVLAFIVLVPINWASG
TLEKEKSLSYDQIDKLSISNLGKGSKRFWAHIVMAYVFTFWTFFVLYREYKVVTTMRLRFLAIQ
NRRADQFTVLVRNVPPDPDETVSEHVEHFFAVNHRDHYLSHQIPALPTTPVTSLYDACSELSLH
R*(+)
MYHLTQMKQLVSMLSTSLLSIIVIIISVTRYQLYQQLPLLLCMMPVLN*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19160793-19160782(+) 19162481-19160768(+)
Potential amino acid sequence	MGSLTDIGVAAGINILSALGFLLAFAVLRIQPINDRVYFPKWYLKGTRSSPRSMGTVFSKFVNA DLSTYIRFLNWMPAALQMPEPELIEHAGLDSAVYVRIYLLGLKIFVPIAVLAFIVLVPINWASG TLEKEKSLSYDQIDKLSISNLGKGSKRFWAHIVMAYVFTFWTFFVLYREYKVVTTMRLRFLAIQ NRRADQFTVLVRNVPPDPDETVSEHVEHFFAVNHRDHYLSHQIPALPTTPVTSLYDACSELSLH R(+) MYHLTQMKQLVSMLSTSLLSIIVIIISVTRYQLYQQLPLLLCMMPVLN(+)
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 Os05g0393800_circ_g.1

Address

Any questions?

Supported by