Plant Circular RNA Database

Detail information of Os11g0186400_circ_g.6

			
						 General Information
					
						CircRNA Name
						Os11g0186400_circ_g.6
					
						ID in PlantcircBase
						osa_circ_008736
					
						Alias
						Os_ciR3676
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 4389566-4390778  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os11g0186400						
					
						Parent gene annotation
						
							Similar to DNA polymerase delta catalytic subunit (EC 2.7.7.7). 
(Os11t0186400-00)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os11g0186400_circ_g.1 Os11g0186400_circ_g.2 Os11g0186400_circ_g.3 Os11g0186400_circ_g.4 Os11g0186400_circ_g.5 Os11g0186400_circ_g.7 						
					
						Support reads
						2/2
					
						Tissues
						root/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
						Os11t0186400-00:6

General Information
CircRNA Name	Os11g0186400_circ_g.6
ID in PlantcircBase	osa_circ_008736
Alias	Os_ciR3676
Organism	Oryza sativa
Position	chr11: 4389566-4390778 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os11g0186400
Parent gene annotation	Similar to DNA polymerase delta catalytic subunit (EC 2.7.7.7). (Os11t0186400-00)
Parent gene strand	-
Alternative splicing	Os11g0186400_circ_g.1 Os11g0186400_circ_g.2 Os11g0186400_circ_g.3 Os11g0186400_circ_g.4 Os11g0186400_circ_g.5 Os11g0186400_circ_g.7
Support reads	2/2
Tissues	root/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	Os11t0186400-00:6

			
						 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  
						
							ACTACAACAGCAGGGGAGAAACAGAGAATGATACCTTCAAATCTGCTTTCGCCCTTTTCCGAGC
AGCCAACAATTCTTCAAGGATTTCAGGAAGTATACCctttcgtgtccattttgtcaaatttctc
aggatttgtccagtacaaaccagcatatctcttcttgctaatcagtagataagggaaatagatc
ttctcaaa

									
								

					

						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: 520
Transcript exons: 4389566-4389680,4389876-4389989,4390184-4390263,4390357-
4390444,4390543-4390599,4390713-4390778
CTTTCGTGTCCATTTTGTCAAATTTCTCAGGATTTGTCCAGTACAAACCAGCATATCTCTTCTT
GCTAATCAGTAGATAAGGGAAATAGATCTTCTCAAACTCAAGCTTGATGGGCTTAATAAATGTT
CCACTAATGTAGTCTGCAGCTTCTCTTCCTAGCTTCATTGCGTCCTCAACAGTAGAAACACCGA
ACTGTACCATTACAGAATCAGTATCTCCATAGATGACCTCTGCATTGTGCTCATAGCCTCCAAG
TGTCGTGAATTTATCTTCAACAAGCTTTTTTGTATGTTCAATCATCTGTCGACCATAGCTGGTC
ACACTTGAAGAAATTTCTAAACAAGGTAATTGACCAACAGTCGCTCCAGTAAAACCATAGACAG
AGTTTGCGCTTATTTTTAGGGCAAGCTGACGACCATCAAGAACGGCCCTTTCAAATGGATCCTT
TGCTTCCTTCAAATCTGCTTTCGCCCTTTTCCGAGCAGCCAACAATTCTTCAAGGATTTCAGGA
AGTATACC
						
					

						Genomic sequence
						
							CTTTCGTGTCCATTTTGTCAAATTTCTCAGGATTTGTCCAGTACAAACCAGCATATCTCTTCTT
GCTAATCAGTAGATAAGGGAAATAGATCTTCTCAAACTCAAGCTTGATGGGCTGCAGGAAAGGT
ATCAACATAAATATGAGTTGAACTCAAAGTAACAAAATTGGAAAAAAAATGGATACTGCAGATG
CAAAATTAGAAAGGAAATGCAAAGGGCAAAATTATTACGACAAGTATCATTTCAGATGATTTTG
AAACGGAGGGGCATTAATGTCAAATAACAGTTACCACAGTAGTTAATGAGTCACCTTAATAAAT
GTTCCACTAATGTAGTCTGCAGCTTCTCTTCCTAGCTTCATTGCGTCCTCAACAGTAGAAACAC
CGAACTGTACCATTACAGAATCAGTATCTCCATAGATGACCTGTAATGCAAAAAACAAAGCATG
AAAAGATAGAACATAAGCGAGAGGGCAGGCTAACCAAACTCATATACCAATAACTAAAGAAACA
AAAGATCATGCAGGCAGGGAAGAAAGTGATTATTGTGCTGATGTCTGGCCACCAACTGCACAGT
TTTAGGTTTTGTCAAACAGGAATATGGCCACTCATCATTCACCTCTGCATTGTGCTCATAGCCT
CCAAGTGTCGTGAATTTATCTTCAACAAGCTTTTTTGTATGTTCAATCATCTGTCGACCTGTTT
GATAAATACATCAGTTTTATGCAATACAACATTTCTCTTGTTAGCTAACTGTACAATGAATTTA
TTGATTCCAGAATTGATGCTCACCATAGCTGGTCACACTTGAAGAAATTTCTAAACAAGGTAAT
TGACCAACAGTCGCTCCAGTAAAACCATAGACAGAGTTTGCGCTTATCTGAAACATAAACCATC
CAACAATATCATGATTCAATGAGTGCACATTTGTGTATCACTGATTTGAGGGAATTGGAGATAA
AAAAGCTATGTAAATACTTTTAGGGCAAGCTGACGACCATCAAGAACGGCCCTTTCAAATGGAT
CCTTTGCTTCCTGAACAAGTAATTGGTGAATTTAGCATAGGATGTAAATGTAGCCTAAAGTGCA
GAGGATTTTTATGTGCAATTGGCTCACTACAACAGCAGGGGAGAAACAGAGAATGATACCTTCA
AATCTGCTTTCGCCCTTTTCCGAGCAGCCAACAATTCTTCAAGGATTTCAGGAAGTATACC
						
					

			
		

Sequences
Splice junction sequence	ACTACAACAGCAGGGGAGAAACAGAGAATGATACCTTCAAATCTGCTTTCGCCCTTTTCCGAGC AGCCAACAATTCTTCAAGGATTTCAGGAAGTATACCctttcgtgtccattttgtcaaatttctc aggatttgtccagtacaaaccagcatatctcttcttgctaatcagtagataagggaaatagatc ttctcaaa
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: 520 Transcript exons: 4389566-4389680,4389876-4389989,4390184-4390263,4390357- 4390444,4390543-4390599,4390713-4390778 CTTTCGTGTCCATTTTGTCAAATTTCTCAGGATTTGTCCAGTACAAACCAGCATATCTCTTCTT GCTAATCAGTAGATAAGGGAAATAGATCTTCTCAAACTCAAGCTTGATGGGCTTAATAAATGTT CCACTAATGTAGTCTGCAGCTTCTCTTCCTAGCTTCATTGCGTCCTCAACAGTAGAAACACCGA ACTGTACCATTACAGAATCAGTATCTCCATAGATGACCTCTGCATTGTGCTCATAGCCTCCAAG TGTCGTGAATTTATCTTCAACAAGCTTTTTTGTATGTTCAATCATCTGTCGACCATAGCTGGTC ACACTTGAAGAAATTTCTAAACAAGGTAATTGACCAACAGTCGCTCCAGTAAAACCATAGACAG AGTTTGCGCTTATTTTTAGGGCAAGCTGACGACCATCAAGAACGGCCCTTTCAAATGGATCCTT TGCTTCCTTCAAATCTGCTTTCGCCCTTTTCCGAGCAGCCAACAATTCTTCAAGGATTTCAGGA AGTATACC
Genomic sequence	CTTTCGTGTCCATTTTGTCAAATTTCTCAGGATTTGTCCAGTACAAACCAGCATATCTCTTCTT GCTAATCAGTAGATAAGGGAAATAGATCTTCTCAAACTCAAGCTTGATGGGCTGCAGGAAAGGT ATCAACATAAATATGAGTTGAACTCAAAGTAACAAAATTGGAAAAAAAATGGATACTGCAGATG CAAAATTAGAAAGGAAATGCAAAGGGCAAAATTATTACGACAAGTATCATTTCAGATGATTTTG AAACGGAGGGGCATTAATGTCAAATAACAGTTACCACAGTAGTTAATGAGTCACCTTAATAAAT GTTCCACTAATGTAGTCTGCAGCTTCTCTTCCTAGCTTCATTGCGTCCTCAACAGTAGAAACAC CGAACTGTACCATTACAGAATCAGTATCTCCATAGATGACCTGTAATGCAAAAAACAAAGCATG AAAAGATAGAACATAAGCGAGAGGGCAGGCTAACCAAACTCATATACCAATAACTAAAGAAACA AAAGATCATGCAGGCAGGGAAGAAAGTGATTATTGTGCTGATGTCTGGCCACCAACTGCACAGT TTTAGGTTTTGTCAAACAGGAATATGGCCACTCATCATTCACCTCTGCATTGTGCTCATAGCCT CCAAGTGTCGTGAATTTATCTTCAACAAGCTTTTTTGTATGTTCAATCATCTGTCGACCTGTTT GATAAATACATCAGTTTTATGCAATACAACATTTCTCTTGTTAGCTAACTGTACAATGAATTTA TTGATTCCAGAATTGATGCTCACCATAGCTGGTCACACTTGAAGAAATTTCTAAACAAGGTAAT TGACCAACAGTCGCTCCAGTAAAACCATAGACAGAGTTTGCGCTTATCTGAAACATAAACCATC CAACAATATCATGATTCAATGAGTGCACATTTGTGTATCACTGATTTGAGGGAATTGGAGATAA AAAAGCTATGTAAATACTTTTAGGGCAAGCTGACGACCATCAAGAACGGCCCTTTCAAATGGAT CCTTTGCTTCCTGAACAAGTAATTGGTGAATTTAGCATAGGATGTAAATGTAGCCTAAAGTGCA GAGGATTTTTATGTGCAATTGGCTCACTACAACAGCAGGGGAGAAACAGAGAATGATACCTTCA AATCTGCTTTCGCCCTTTTCCGAGCAGCCAACAATTCTTCAAGGATTTCAGGAAGTATACC

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_009332 						
					
						PMCS
						0.288552975

Conservation Information
Conserved circRNAs	osi_circ_009332
PMCS	0.288552975

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							4390585-4389642(+)
4390257-4390767(-)
4389621-4390767(-)
						
						Potential amino acid sequence
						
							MDPLLPSNLLSPFSEQPTILQGFQEVYPFVSILSNFSGFVQYKPAYLFLLISR*(+)
MIEHTKKLVEDKFTTLGGYEHNAEVIYGDTDSVMVQFGVSTVEDAMKLGREAADYISGTFIKPI
KLEFEKIYFPYLLISKKRYAGLYWTNPEKFDKMDTKGYTS*(-)
MLVCTGQILRNLTKWTRKGILPEILEELLAARKRAKADLKEAKDPFERAVLDGRQLALKISANS
VYGFTGATVGQLPCLEISSSVTSYGRQMIEHTKKLVEDKFTTLGGYEHNAEVIYGDTDSVMVQF
GVSTVEDAMKLGREAADYISGTFIKPIKLEFEKIYFPYLLISKKRYAGLYWTNPEKFDKMDTKG
YTS*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	4390585-4389642(+) 4390257-4390767(-) 4389621-4390767(-)
Potential amino acid sequence	MDPLLPSNLLSPFSEQPTILQGFQEVYPFVSILSNFSGFVQYKPAYLFLLISR(+) MIEHTKKLVEDKFTTLGGYEHNAEVIYGDTDSVMVQFGVSTVEDAMKLGREAADYISGTFIKPI KLEFEKIYFPYLLISKKRYAGLYWTNPEKFDKMDTKGYTS(-) MLVCTGQILRNLTKWTRKGILPEILEELLAARKRAKADLKEAKDPFERAVLDGRQLALKISANS VYGFTGATVGQLPCLEISSSVTSYGRQMIEHTKKLVEDKFTTLGGYEHNAEVIYGDTDSVMVQF GVSTVEDAMKLGREAADYISGTFIKPIKLEFEKIYFPYLLISKKRYAGLYWTNPEKFDKMDTKG YTS*(-)
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 Os11g0186400_circ_g.6

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