Plant Circular RNA Database

Detail information of Os01g0617200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os01g0617200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_002636
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr1: 24499795-24503240  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						PcircRNA_finder
					
						Parent gene
						
							Os01g0616900						
					
						Parent gene annotation
						
							Ctps protein. (Os01t0616900-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os01g0617200_circ_g.1 Os01g0617200_circ_g.2 Os01g0617200_circ_g.4 Os01g0617200_circ_g.5 Os01g0617200_circ_g.6 Os01g0617200_circ_g.7 Os01g0617200_circ_g.8 Os01g0617200_circ_g.9 						
					
						Support reads
						1
					
						Tissues
						seed
					
						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
						Os01t0617200-00:15
Os01t0617200-00:15
Os01t0616900-00:18

General Information
CircRNA Name	Os01g0617200_circ_g.3
ID in PlantcircBase	osa_circ_002636
Alias	NA
Organism	Oryza sativa
Position	chr1: 24499795-24503240 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	PcircRNA_finder
Parent gene	Os01g0616900
Parent gene annotation	Ctps protein. (Os01t0616900-00)
Parent gene strand	-
Alternative splicing	Os01g0617200_circ_g.1 Os01g0617200_circ_g.2 Os01g0617200_circ_g.4 Os01g0617200_circ_g.5 Os01g0617200_circ_g.6 Os01g0617200_circ_g.7 Os01g0617200_circ_g.8 Os01g0617200_circ_g.9
Support reads	1
Tissues	seed
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	Os01t0617200-00:15 Os01t0617200-00:15 Os01t0616900-00:18

			
						 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  
						
							ATTTGGCCACATCTCAATACCTCGCCACCATCATCAAGCACAAAAACCTCACCATGTTCGAACG
GGGACATGGTCCCAGCATCTGTGTTAAGGTAAGGATctccattctccttccagtctcatctttc
ccaacaaactgaagtccagcattttcaaactctggcaccatatctggattcacctgtgaagttg
tagatgtt

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							CTCCATTCTCCTTCCAGTCTCATCTTTCCCAACAAACTGAAGTCCAGCATTTTCAAACTCTGGC
ACCATATCTGGATTCACCTGTGAAGTTGTAGATGTTTCAGTCCATGTTACAAGAAGCAAATAAA
TCGAAACTTATAAGAGCTTAAAGACCATACAATACATGGAACATTTCATAGCATTTAGATGTAC
ATCTATGAACCGACACAATGTGATCAACAGACCTCATATCTGTGCCGATGCCTCTCATCTACAT
AACTGACATTGCCATACCTACAGCAGAACACAATTATTTCAGGGGATGCAACAAATCGCAAGGA
CTCTTAAGCACTGGGGCCATAATGGTTATGCAGAAAGGCCTATATGTGCACTCACAATTTAGCA
GACTTGCAATCAGCAACCTCGAAAAATGTCCTCCTTGATCCTAGGCGCATCGTGCCACCCATAT
GTGTTTTAGAACCCTGAGTTAACATACATAAAGATTTAATTCAAGGGAAGGCAGTGGGAAGTTG
ACTTTAAATTCAAAGAGGTTCCCAAAATAATTACCTCAGGCATAAAAATAACACATGGGGTCTT
GGCATTGGGATCAAATTCTGTGCTGTTTGCTTCAGGGAGATTCATGACACTTCGAGCAAATTCA
ACCACAGCAAGTTGCATTCCAAGGCATATGCCAAGATATGGTACATTGTTTTCACGGGCATACT
TGGCAGCCAAAATCTTCCCTTGAATACCTCTATCTCCAAAGCCACCAGGTACTAAAACACCATT
GGCACCCTGAGATGACAACCGTTCATAAAACCATGACAGGCAATAATTTATCCATTATAACTCA
TATATGCAACAGCATTACAAGTTTTTCAAAACGCCAAAATAATTTAAAAAAAACCTTACCTTCA
GTAAATCCCATGCTGCTTTATAAGCATCAGGCGCCTAGAAATTTAGCAAGGAATGATTAAGAAA
AGAAAACAGCTCAAATTGGTTTGAATTATGCTGCTACTGCCTAACCTCAATGGCAGTGGAGTCT
TCGAGATCAGTAGAAGCAACCCAATCAACAAGAAGCTTCCTGCGGCAATCAACAGAAGCATGCA
AGAGTGCCTACACATATTACGCAGCACACTCAGATATTAGAAAACAACTGTCAAATTTATAAAA
TACAAGCATATTATCACCATGGTAATCTAGCTCACCTTCAACACAGAGAGGTATGAATCAGATA
GACCAGTATACTTCCCAACCATAGCAATCCTCACCTGAAATGAGAGCATTAGTCAATGGGAACT
AAGAATAAAAAGACCAAATGGGAAAATTGAAGTAAGAAAAAACTAACAGTATCCTGAAGTGCAT
CAAATAACGTAGCTCTTGCGACCCATTCATCCAACTTTGGCCCCCGAGCAAAGCTGCAAGTTTA
TAAATAAATATCCAATCGCATCAACTGCCTCAATACACAATAATATAGGTTGGGGAAAATTTAA
ATGACTAGATATATCGACAAACCTATCAAGGTTCAGCACTTTAAGAATGGCTTCATGTGCCTTT
TGGTCCTAAATGGCAGAAATGAGATATGCACTGTTAAAACAGGATGTGGGATACGCCAAAAAAG
AATTTTTTTGTAAGGGGGAAAAGAGAGATGTGACGTACCCGTAGCAACAAAGGAATACGCCAAA
TGTTGGAAACATCATACAGAGTGACAATGTTAGCTGCCTGCAGAATGCCAATAAATAATGAGCT
AACAGGAGCAGTTTTAGCTGCCAAAGCTTATTGATCAATCCTGACAACATAAGTTTACAGTACA
TTACCGGTACATGGCAGAACTGAGAGAGTTTCTCCTTCACATTTTCTTCCAGTTCCTGATAAAT
AATATTGCAGTTCAAGAAATTTAGTCTTAAGAAAAGATTCAGGGACTACCAAGATACAGAATAA
AGGTAAATGAAAATTTTCAGCTAACCTTAGTACTGCGACAGGCTAAAATATTTGGTGTGAGCCC
AAGACCCCTTAATCCACGGACACTATGTTGAGTCGGCTTAGTTTTCTACAAGAGTAAATAGCAT
AGATGTAGAGGAAATTGTCAAATGTATTGCGACTGCACCAACTTACCAAAATAAGACCATAAAA
GCCATAAGATGGATTAATAAACAGTACAACATAATAAATGAATCAACAGTGTGGTACCTGTTCA
CCAACAACATTCAGAACTGGAACAAGACTAACATGCACCAAACAAAAGTTACCAGGACCTGACA
GCCAAAGTAATGTCCAACAAGAGATTATAATACCAGCTACATAGCAAAAGGTGAGCACAGTATA
TTTAGTATGCATGTAACTGTGCAAGGTCCTCACCAACACGATATGAGAATTGGCCCAAAGCTTC
GATAAATGGCATAGATTCAATATCCCCTGCAGGAGTAACAACACAATCAAGCTACAAGAAACCA
GTTCTAAATTTTCTATTAGGACAACTAACAACCAAAATAAAATAAAATAAAACTAATTATCTCA
TGCTCACCTATAGTACCCCCAAGTTCTATCACACAAACATCAGCTGGTCCCTCCTTGCCATCTA
CAGGTACCATTGCGACACGCTCAATCCACTCTTGTATGGCATTTGTGATATGCGGGACAACCTT
GAGAAAGAATCATTGAATGATCAGAACGAAAAGAAACATACATGCAGAGGTTACTAGGACAGAC
AGAGATAAGTTCACATCAAATGAACCACACCTGAACAGTCTTTCCCAAGTATTCCCCCTTCCTT
TCCTTTTCAAGAACGGACTGTCATTGAACATATAGAAAGGCAAAAATAAGTGTCAGAAAAAAGT
CAAAGCAGTTTGTTATGCAGGGAGCAGCAACTGTATTTACGATGTCACATATTTGACACGATAT
TAATCTTGTATATCCTGGTGGTTAAAAAAGTTCGCCTGAGCCCTTAATACAATCATCAAGTCAC
ATAAGACAACAATGGCATCATTTTCCTTCCTATGTAAAATATAGTAACGTCGACATCAATTGAA
CCAATTTAAAATTATTCTGAATGTTTGTATACCAAAGAATGCCGTAAAATAGCAATATTTCCAA
GCTCTTAGAATTTATAAAGAGAATTAAGTATGAGACTTTAAATTGGATATATTAGAAGTGCCAA
ATATAAAACAAAAGACCATGTAAATTAAGCTTTTAAGAGGAGAAACTAATTTGTTTACCTGGTA
GATCTTTCCTGTGGTTATATTATTGTCCCTGGTTAGTTTAATGTCAAGAAACCTCTCGTAATTC
CCAAGATCCAAGTCCACCTGCAAGATGAAAACGACAACACTCCTTGAGATAAGTAAAAATGTGC
TAATCCTAGTAAAATCTGATTTGGCCACATCTCAATACCTCGCCACCATCATCAAGCACAAAAA
CCTCACCATGTTCGAACGGGGACATGGTCCCAGCATCTGTGTTAAGGTAAGGAT
						
					

			
		

Sequences
Splice junction sequence	ATTTGGCCACATCTCAATACCTCGCCACCATCATCAAGCACAAAAACCTCACCATGTTCGAACG GGGACATGGTCCCAGCATCTGTGTTAAGGTAAGGATctccattctccttccagtctcatctttc ccaacaaactgaagtccagcattttcaaactctggcaccatatctggattcacctgtgaagttg tagatgtt
Assembled circRNA sequence	NA 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	NA
Genomic sequence	CTCCATTCTCCTTCCAGTCTCATCTTTCCCAACAAACTGAAGTCCAGCATTTTCAAACTCTGGC ACCATATCTGGATTCACCTGTGAAGTTGTAGATGTTTCAGTCCATGTTACAAGAAGCAAATAAA TCGAAACTTATAAGAGCTTAAAGACCATACAATACATGGAACATTTCATAGCATTTAGATGTAC ATCTATGAACCGACACAATGTGATCAACAGACCTCATATCTGTGCCGATGCCTCTCATCTACAT AACTGACATTGCCATACCTACAGCAGAACACAATTATTTCAGGGGATGCAACAAATCGCAAGGA CTCTTAAGCACTGGGGCCATAATGGTTATGCAGAAAGGCCTATATGTGCACTCACAATTTAGCA GACTTGCAATCAGCAACCTCGAAAAATGTCCTCCTTGATCCTAGGCGCATCGTGCCACCCATAT GTGTTTTAGAACCCTGAGTTAACATACATAAAGATTTAATTCAAGGGAAGGCAGTGGGAAGTTG ACTTTAAATTCAAAGAGGTTCCCAAAATAATTACCTCAGGCATAAAAATAACACATGGGGTCTT GGCATTGGGATCAAATTCTGTGCTGTTTGCTTCAGGGAGATTCATGACACTTCGAGCAAATTCA ACCACAGCAAGTTGCATTCCAAGGCATATGCCAAGATATGGTACATTGTTTTCACGGGCATACT TGGCAGCCAAAATCTTCCCTTGAATACCTCTATCTCCAAAGCCACCAGGTACTAAAACACCATT GGCACCCTGAGATGACAACCGTTCATAAAACCATGACAGGCAATAATTTATCCATTATAACTCA TATATGCAACAGCATTACAAGTTTTTCAAAACGCCAAAATAATTTAAAAAAAACCTTACCTTCA GTAAATCCCATGCTGCTTTATAAGCATCAGGCGCCTAGAAATTTAGCAAGGAATGATTAAGAAA AGAAAACAGCTCAAATTGGTTTGAATTATGCTGCTACTGCCTAACCTCAATGGCAGTGGAGTCT TCGAGATCAGTAGAAGCAACCCAATCAACAAGAAGCTTCCTGCGGCAATCAACAGAAGCATGCA AGAGTGCCTACACATATTACGCAGCACACTCAGATATTAGAAAACAACTGTCAAATTTATAAAA TACAAGCATATTATCACCATGGTAATCTAGCTCACCTTCAACACAGAGAGGTATGAATCAGATA GACCAGTATACTTCCCAACCATAGCAATCCTCACCTGAAATGAGAGCATTAGTCAATGGGAACT AAGAATAAAAAGACCAAATGGGAAAATTGAAGTAAGAAAAAACTAACAGTATCCTGAAGTGCAT CAAATAACGTAGCTCTTGCGACCCATTCATCCAACTTTGGCCCCCGAGCAAAGCTGCAAGTTTA TAAATAAATATCCAATCGCATCAACTGCCTCAATACACAATAATATAGGTTGGGGAAAATTTAA ATGACTAGATATATCGACAAACCTATCAAGGTTCAGCACTTTAAGAATGGCTTCATGTGCCTTT TGGTCCTAAATGGCAGAAATGAGATATGCACTGTTAAAACAGGATGTGGGATACGCCAAAAAAG AATTTTTTTGTAAGGGGGAAAAGAGAGATGTGACGTACCCGTAGCAACAAAGGAATACGCCAAA TGTTGGAAACATCATACAGAGTGACAATGTTAGCTGCCTGCAGAATGCCAATAAATAATGAGCT AACAGGAGCAGTTTTAGCTGCCAAAGCTTATTGATCAATCCTGACAACATAAGTTTACAGTACA TTACCGGTACATGGCAGAACTGAGAGAGTTTCTCCTTCACATTTTCTTCCAGTTCCTGATAAAT AATATTGCAGTTCAAGAAATTTAGTCTTAAGAAAAGATTCAGGGACTACCAAGATACAGAATAA AGGTAAATGAAAATTTTCAGCTAACCTTAGTACTGCGACAGGCTAAAATATTTGGTGTGAGCCC AAGACCCCTTAATCCACGGACACTATGTTGAGTCGGCTTAGTTTTCTACAAGAGTAAATAGCAT AGATGTAGAGGAAATTGTCAAATGTATTGCGACTGCACCAACTTACCAAAATAAGACCATAAAA GCCATAAGATGGATTAATAAACAGTACAACATAATAAATGAATCAACAGTGTGGTACCTGTTCA CCAACAACATTCAGAACTGGAACAAGACTAACATGCACCAAACAAAAGTTACCAGGACCTGACA GCCAAAGTAATGTCCAACAAGAGATTATAATACCAGCTACATAGCAAAAGGTGAGCACAGTATA TTTAGTATGCATGTAACTGTGCAAGGTCCTCACCAACACGATATGAGAATTGGCCCAAAGCTTC GATAAATGGCATAGATTCAATATCCCCTGCAGGAGTAACAACACAATCAAGCTACAAGAAACCA GTTCTAAATTTTCTATTAGGACAACTAACAACCAAAATAAAATAAAATAAAACTAATTATCTCA TGCTCACCTATAGTACCCCCAAGTTCTATCACACAAACATCAGCTGGTCCCTCCTTGCCATCTA CAGGTACCATTGCGACACGCTCAATCCACTCTTGTATGGCATTTGTGATATGCGGGACAACCTT GAGAAAGAATCATTGAATGATCAGAACGAAAAGAAACATACATGCAGAGGTTACTAGGACAGAC AGAGATAAGTTCACATCAAATGAACCACACCTGAACAGTCTTTCCCAAGTATTCCCCCTTCCTT TCCTTTTCAAGAACGGACTGTCATTGAACATATAGAAAGGCAAAAATAAGTGTCAGAAAAAAGT CAAAGCAGTTTGTTATGCAGGGAGCAGCAACTGTATTTACGATGTCACATATTTGACACGATAT TAATCTTGTATATCCTGGTGGTTAAAAAAGTTCGCCTGAGCCCTTAATACAATCATCAAGTCAC ATAAGACAACAATGGCATCATTTTCCTTCCTATGTAAAATATAGTAACGTCGACATCAATTGAA CCAATTTAAAATTATTCTGAATGTTTGTATACCAAAGAATGCCGTAAAATAGCAATATTTCCAA GCTCTTAGAATTTATAAAGAGAATTAAGTATGAGACTTTAAATTGGATATATTAGAAGTGCCAA ATATAAAACAAAAGACCATGTAAATTAAGCTTTTAAGAGGAGAAACTAATTTGTTTACCTGGTA GATCTTTCCTGTGGTTATATTATTGTCCCTGGTTAGTTTAATGTCAAGAAACCTCTCGTAATTC CCAAGATCCAAGTCCACCTGCAAGATGAAAACGACAACACTCCTTGAGATAAGTAAAAATGTGC TAATCCTAGTAAAATCTGATTTGGCCACATCTCAATACCTCGCCACCATCATCAAGCACAAAAA CCTCACCATGTTCGAACGGGGACATGGTCCCAGCATCTGTGTTAAGGTAAGGAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.129232385

Conservation Information
Conserved circRNAs	NA
PMCS	0.129232385

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24503195-24499831(+)
24499846-24503230(-)
24503213-24503029(-)
						
						Potential amino acid sequence
						
							MFERGHGPSICVKVRISILLPVSSFPTN*(+)
MLDFSLLGKMRLEGEWRSLP*(-)
MSPFEHGEVFVLDDGGEVDLDLGNYERFLDIKLTRDNNITTGKIYQSVLEKERKGEYLGKTVQV
VPHITNAIQEWIERVAMVPVDGKEGPADVCVIELGGTIGDIESMPFIEALGQFSYRVGPGNFCL
VHVSLVPVLNVVGEQKTKPTQHSVRGLRGLGLTPNILACRSTKELEENVKEKLSQFCHVPAANI
VTLYDVSNIWRIPLLLRDQKAHEAILKVLNLDSFARGPKLDEWVARATLFDALQDTVRIAMVGK
YTGLSDSYLSVLKALLHASVDCRRKLLVDWVASTDLEDSTAIEAPDAYKAAWDLLKGANGVLVP
GGFGDRGIQGKILAAKYARENNVPYLGICLGMQLAVVEFARSVMNLPEANSTEFDPNAKTPCVI
FMPEGSKTHMGGTMRLGSRRTFFEVADCKSAKLYGNVSYVDERHRHRYEVNPDMVPEFENAGLQ
FVGKDETGRRMEILTLTQMLGPCPRSNMVRFLCLMMVARWTWILGITRGFLTLN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	24503195-24499831(+) 24499846-24503230(-) 24503213-24503029(-)
Potential amino acid sequence	MFERGHGPSICVKVRISILLPVSSFPTN(+) MLDFSLLGKMRLEGEWRSLP(-) MSPFEHGEVFVLDDGGEVDLDLGNYERFLDIKLTRDNNITTGKIYQSVLEKERKGEYLGKTVQV VPHITNAIQEWIERVAMVPVDGKEGPADVCVIELGGTIGDIESMPFIEALGQFSYRVGPGNFCL VHVSLVPVLNVVGEQKTKPTQHSVRGLRGLGLTPNILACRSTKELEENVKEKLSQFCHVPAANI VTLYDVSNIWRIPLLLRDQKAHEAILKVLNLDSFARGPKLDEWVARATLFDALQDTVRIAMVGK YTGLSDSYLSVLKALLHASVDCRRKLLVDWVASTDLEDSTAIEAPDAYKAAWDLLKGANGVLVP GGFGDRGIQGKILAAKYARENNVPYLGICLGMQLAVVEFARSVMNLPEANSTEFDPNAKTPCVI FMPEGSKTHMGGTMRLGSRRTFFEVADCKSAKLYGNVSYVDERHRHRYEVNPDMVPEFENAGLQ FVGKDETGRRMEILTLTQMLGPCPRSNMVRFLCLMMVARWTWILGITRGFLTLN*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os01g0617200_circ_g.3

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