Plant Circular RNA Database

Detail information of Os03g0356652_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os03g0356652_circ_g.1
					
						ID in PlantcircBase
						osa_circ_019886
					
						Alias
						Os_ciR8513
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr3: 13744361-13746882  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
					
						Parent gene
						
							Os03g0356652						
					
						Parent gene annotation
						
							Zinc finger, C2H2-like domain containing protein. (Os03t0356652-
01)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os03g0356652_circ_g.2 						
					
						Support reads
						2/4
					
						Tissues
						root/root, 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
						Os03t0356652-01:3

General Information
CircRNA Name	Os03g0356652_circ_g.1
ID in PlantcircBase	osa_circ_019886
Alias	Os_ciR8513
Organism	Oryza sativa
Position	chr3: 13744361-13746882 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder, find_circ
Parent gene	Os03g0356652
Parent gene annotation	Zinc finger, C2H2-like domain containing protein. (Os03t0356652- 01)
Parent gene strand	-
Alternative splicing	Os03g0356652_circ_g.2
Support reads	2/4
Tissues	root/root, 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	Os03t0356652-01:3

			
						 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  
						
							CTTTCTGGCCACCATTTCTCCACAGTGTTCACACTTTTGAAGGTTACGTGCGCAGTGTGCCGAA
TGTAAGTCAATGTTTGACGATGGAATTTCTCGCTGGcttgatgtctgtgcagaagcatttgcat
ttgcatttgcatgacactgtatttcatgcccaatccattcacgtagtctaacatacttcttgca
tgtttgac

									
								

					

						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: 402
Transcript exons: 13744361-13744488,13744748-13744885,13746747-13746882
CTTGATGTCTGTGCAGAAGCATTTGCATTTGCATTTGCATGACACTGTATTTCATGCCCAATCC
ATTCACGTAGTCTAACATACTTCTTGCATGTTTGACAAAATTCTGTTCGGTTTCCGCATACATC
CTGATGTTCATGAAGCTCAACCGCAGGCAACTCAAACTCACAATATTCACATGCAACAATCCTT
TGTGGGCACTGTTCACTTTTATGAAGATCCCAGATCTCGCGTGTTACAATTTCCTTGCAAAGAG
TGCAATTTACTGGAGCATGGCTTTCATTGTAGTGCTCGTCCATAAGCTTTCTGGCCACCATTTC
TCCACAGTGTTCACACTTTTGAAGGTTACGTGCGCAGTGTGCCGAATGTAAGTCAATGTTTGAC
GATGGAATTTCTCGCTGG
						
					

						Genomic sequence
						
							CTTGATGTCTGTGCAGAAGCATTTGCATTTGCATTTGCATGACACTGTATTTCATGCCCAATCC
ATTCACGTAGTCTAACATACTTCTTGCATGTTTGACAAAATTCTGTTCGGTTTCCGCATACATC
CTGCATCTCAAACTAGTACGATTAAAACATATATCTACGACTTAAAAAAAAAGATGTATTCCTT
ACATATTGTGTGTATTATAAGGTATTTGGTTGATGCCATATAGTCTTGTGTATAATTTTCAGAA
TTAAGGGCAATTATTTTTGCAATTAGCTCTAGATCTTATAGTATATTACTTGTTATAAATCGAA
GGCACGGGCATACTGTTAGTAAAAAAAAAAGAGAGAGATTGTTTCAAGGCAAACAACAAAACAG
CACCTGATGTTCATGAAGCTCAACCGCAGGCAACTCAAACTCACAATATTCACATGCAACAATC
CTTTGTGGGCACTGTTCACTTTTATGAAGATCCCAGATCTCGCGTGTTACAATTTCCTTGCAAA
GAGTGCAATTTACCTGTATGTAACATGATTAGAGTGATCATACATTGCCGAAAAAATACAATTG
CTCTATAGATCATGGAACATGTAAATTCTAATATTCTTACTATTGTATATGGAATTGTAATGTG
GCATTAGTTCCTGGTTTCAGTTGGTACGCAAAAATATCATGCATTTGGCAAACATAACAGAACG
TGTATCCAATTTGTACGTACAACAAAAAGTTTACAGGCTGATGATGGTTGGATGAAGCATAGCA
ACCACAACCATGGTGTATGGGGTTTGTGGTGTGCAATTAGTTATTCCACAAAAAAAGCCACACT
GTCCCACCATCAACCAGCATGCCACAGTGCTTCCCTCTTGCTCTACCCTTCCCTTTCTTTTCCT
TTGTAATGAGACTCTGGATACAATCCAGGAAACGCTGCTGATGCCTCATATCCTTGGTGTGGTG
GCTTCAAATAGCAAAGAGACAACAGTGGCTTCAGCGAGCAACATGTGAAGAAATTATGGTGGAG
ACAGACATATTGACACAAAAAGCAACGGCTGTAGCTACAGTTCGTGCTCCCTCTTCCCTTCCCC
TACTCTCTGCCCCTTGGTGTATAGGGTCACTGATTTGGCCAATTCGTGCAGTTCAGGTGTCGTT
CCACAGCGATCCTAAAGTCGCAGGCATAATGCAGTTCAGTTCATGCAATTGAACATGTGGCCTC
ATGGCATGATTTTGGTAGCTATGGAACGAAAATTGTTCTTGTTTATAACTGTAAGCCTCACACA
TTTAGTTATTATTATTGCTGCATGCTTTGCTTGCTTCAAAAACCAGTAACCCCTCTACGGAAAG
AGTTTAAGAATATTAAAGCTTATTGTGAAGAGTAAATATGTACCTAAAATGATCAATTAAATTA
TAGGTTGGAGATCTCATCATCCAACTATGGCAGTGATATATTCAATAGCGCAGGCAATCTCATG
TTCATCTTTACTACTTTAAAAGAGTGTAGTGGTGACGGTGAATCCGAGTCTACACATTACCAAA
AACTACTCCATCTATCCACCTCTTCTACCTATGAAGCTCGAAGCTACCATGTAGCTGGAAAATA
TGAGATGGAATAACAGAACCACCCTTTGATCCAACATGTAGAGAGTACCCAGAAGTTACTATGA
AACTCCAACATGTAACTGGAGTTGTAGATGCACAACTACAAAAAAACTCCAGGGTTACTCTACT
ATAGAAATACTCTCTTGATTATAATTAAATATTAGAAAATTACAGTGCACTTTGAAATTAGTTC
TTTTATGTTGGTTGGGAGATTGTTACCTTTGCAGCGCACAGGCATTTGGCTAGTAACTAAGTTT
TCACGCCAATGACCAATGGTAAGCAATTTGGTATGTAACTATGTATACATTAAATTTTGCACGT
TCATTCATGGAGAATTGTGCCATGAGATAGTGGAAGCCGTATTTTTCAGGAGTTAATGACAACT
GCAGGTCCCACTAACAGAGTTACAGAGGAGATGCCAGATGTGCAGGGATCTTCTCTCTCTGTTT
TTCTTTTTCAGAAAGGGAATCCAGAACATGGGCCACTGTCAAAACCTATTTCAGTTTTGATTAT
GTAACAGAGAAATAGGCTATATTCCCCTTTTAAACTAAAAAAAGGTTTAATCACATCCCTCGAA
TTGCATCAAGTAATACAACTTTCTAAGAGTACCACAAAAGAAAGTCCTAATTGGTGCAGTCAAC
TGTCAAGTGCCAACATATTGCTCAACTGAGTCCTAAGATAAATAAACAGATAGCACTGAAATGG
AAGCATCCCAAGCAAATCACAAGTATGGTATAATGTTTTGAAAGCCCAAAACTCAAGATTTATG
ATGAGGTTTTGAACATACTGGAGCATGGCTTTCATTGTAGTGCTCGTCCATAAGCTTTCTGGCC
ACCATTTCTCCACAGTGTTCACACTTTTGAAGGTTACGTGCGCAGTGTGCCGAATGTAAGTCAA
TGTTTGACGATGGAATTTCTCGCTGG
						
					

			
		

Sequences
Splice junction sequence	CTTTCTGGCCACCATTTCTCCACAGTGTTCACACTTTTGAAGGTTACGTGCGCAGTGTGCCGAA TGTAAGTCAATGTTTGACGATGGAATTTCTCGCTGGcttgatgtctgtgcagaagcatttgcat ttgcatttgcatgacactgtatttcatgcccaatccattcacgtagtctaacatacttcttgca tgtttgac
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: 402 Transcript exons: 13744361-13744488,13744748-13744885,13746747-13746882 CTTGATGTCTGTGCAGAAGCATTTGCATTTGCATTTGCATGACACTGTATTTCATGCCCAATCC ATTCACGTAGTCTAACATACTTCTTGCATGTTTGACAAAATTCTGTTCGGTTTCCGCATACATC CTGATGTTCATGAAGCTCAACCGCAGGCAACTCAAACTCACAATATTCACATGCAACAATCCTT TGTGGGCACTGTTCACTTTTATGAAGATCCCAGATCTCGCGTGTTACAATTTCCTTGCAAAGAG TGCAATTTACTGGAGCATGGCTTTCATTGTAGTGCTCGTCCATAAGCTTTCTGGCCACCATTTC TCCACAGTGTTCACACTTTTGAAGGTTACGTGCGCAGTGTGCCGAATGTAAGTCAATGTTTGAC GATGGAATTTCTCGCTGG
Genomic sequence	CTTGATGTCTGTGCAGAAGCATTTGCATTTGCATTTGCATGACACTGTATTTCATGCCCAATCC ATTCACGTAGTCTAACATACTTCTTGCATGTTTGACAAAATTCTGTTCGGTTTCCGCATACATC CTGCATCTCAAACTAGTACGATTAAAACATATATCTACGACTTAAAAAAAAAGATGTATTCCTT ACATATTGTGTGTATTATAAGGTATTTGGTTGATGCCATATAGTCTTGTGTATAATTTTCAGAA TTAAGGGCAATTATTTTTGCAATTAGCTCTAGATCTTATAGTATATTACTTGTTATAAATCGAA GGCACGGGCATACTGTTAGTAAAAAAAAAAGAGAGAGATTGTTTCAAGGCAAACAACAAAACAG CACCTGATGTTCATGAAGCTCAACCGCAGGCAACTCAAACTCACAATATTCACATGCAACAATC CTTTGTGGGCACTGTTCACTTTTATGAAGATCCCAGATCTCGCGTGTTACAATTTCCTTGCAAA GAGTGCAATTTACCTGTATGTAACATGATTAGAGTGATCATACATTGCCGAAAAAATACAATTG CTCTATAGATCATGGAACATGTAAATTCTAATATTCTTACTATTGTATATGGAATTGTAATGTG GCATTAGTTCCTGGTTTCAGTTGGTACGCAAAAATATCATGCATTTGGCAAACATAACAGAACG TGTATCCAATTTGTACGTACAACAAAAAGTTTACAGGCTGATGATGGTTGGATGAAGCATAGCA ACCACAACCATGGTGTATGGGGTTTGTGGTGTGCAATTAGTTATTCCACAAAAAAAGCCACACT GTCCCACCATCAACCAGCATGCCACAGTGCTTCCCTCTTGCTCTACCCTTCCCTTTCTTTTCCT TTGTAATGAGACTCTGGATACAATCCAGGAAACGCTGCTGATGCCTCATATCCTTGGTGTGGTG GCTTCAAATAGCAAAGAGACAACAGTGGCTTCAGCGAGCAACATGTGAAGAAATTATGGTGGAG ACAGACATATTGACACAAAAAGCAACGGCTGTAGCTACAGTTCGTGCTCCCTCTTCCCTTCCCC TACTCTCTGCCCCTTGGTGTATAGGGTCACTGATTTGGCCAATTCGTGCAGTTCAGGTGTCGTT CCACAGCGATCCTAAAGTCGCAGGCATAATGCAGTTCAGTTCATGCAATTGAACATGTGGCCTC ATGGCATGATTTTGGTAGCTATGGAACGAAAATTGTTCTTGTTTATAACTGTAAGCCTCACACA TTTAGTTATTATTATTGCTGCATGCTTTGCTTGCTTCAAAAACCAGTAACCCCTCTACGGAAAG AGTTTAAGAATATTAAAGCTTATTGTGAAGAGTAAATATGTACCTAAAATGATCAATTAAATTA TAGGTTGGAGATCTCATCATCCAACTATGGCAGTGATATATTCAATAGCGCAGGCAATCTCATG TTCATCTTTACTACTTTAAAAGAGTGTAGTGGTGACGGTGAATCCGAGTCTACACATTACCAAA AACTACTCCATCTATCCACCTCTTCTACCTATGAAGCTCGAAGCTACCATGTAGCTGGAAAATA TGAGATGGAATAACAGAACCACCCTTTGATCCAACATGTAGAGAGTACCCAGAAGTTACTATGA AACTCCAACATGTAACTGGAGTTGTAGATGCACAACTACAAAAAAACTCCAGGGTTACTCTACT ATAGAAATACTCTCTTGATTATAATTAAATATTAGAAAATTACAGTGCACTTTGAAATTAGTTC TTTTATGTTGGTTGGGAGATTGTTACCTTTGCAGCGCACAGGCATTTGGCTAGTAACTAAGTTT TCACGCCAATGACCAATGGTAAGCAATTTGGTATGTAACTATGTATACATTAAATTTTGCACGT TCATTCATGGAGAATTGTGCCATGAGATAGTGGAAGCCGTATTTTTCAGGAGTTAATGACAACT GCAGGTCCCACTAACAGAGTTACAGAGGAGATGCCAGATGTGCAGGGATCTTCTCTCTCTGTTT TTCTTTTTCAGAAAGGGAATCCAGAACATGGGCCACTGTCAAAACCTATTTCAGTTTTGATTAT GTAACAGAGAAATAGGCTATATTCCCCTTTTAAACTAAAAAAAGGTTTAATCACATCCCTCGAA TTGCATCAAGTAATACAACTTTCTAAGAGTACCACAAAAGAAAGTCCTAATTGGTGCAGTCAAC TGTCAAGTGCCAACATATTGCTCAACTGAGTCCTAAGATAAATAAACAGATAGCACTGAAATGG AAGCATCCCAAGCAAATCACAAGTATGGTATAATGTTTTGAAAGCCCAAAACTCAAGATTTATG ATGAGGTTTTGAACATACTGGAGCATGGCTTTCATTGTAGTGCTCGTCCATAAGCTTTCTGGCC ACCATTTCTCCACAGTGTTCACACTTTTGAAGGTTACGTGCGCAGTGTGCCGAATGTAAGTCAA TGTTTGACGATGGAATTTCTCGCTGG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.202651365

Conservation Information
Conserved circRNAs	NA
PMCS	0.202651365

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							13746857-13744399(+)
13746867-13744436(+)
13746799-13744363(-)
13744760-13744884(-)
						
						Potential amino acid sequence
						
							MFDDGISRWLDVCAEAFAFAFA*(+)
MEFLAGLMSVQKHLHLHLHDTVFHAQSIHVV*(+)
MVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVACEYCEFELPAVELHEHQD
VCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTSSQREIPSSNIDLHSAHCARNLQK
CEHCGEMVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVACEYCEFELPAVE
LHEHQDVCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTSSQREIPSSNIDLHSAHC
ARNLQKCEHCGEMVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVACEYCEF
ELPAVELHEHQDVCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTSSQREIPSSNID
LHSAHCARNLQKCEHCGEMVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVA
CEYCEFELPAVELHEHQDVCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTS(-)
MNIRMYAETEQNFVKHARSMLDYVNGLGMKYSVMQMQMQMLLHRHQASEKFHRQTLTYIRHTAH
VTFKSVNTVEKWWPESLWTSTTMKAMLQ*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	13746857-13744399(+) 13746867-13744436(+) 13746799-13744363(-) 13744760-13744884(-)
Potential amino acid sequence	MFDDGISRWLDVCAEAFAFAFA(+) MEFLAGLMSVQKHLHLHLHDTVFHAQSIHVV(+) MVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVACEYCEFELPAVELHEHQD VCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTSSQREIPSSNIDLHSAHCARNLQK CEHCGEMVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVACEYCEFELPAVE LHEHQDVCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTSSQREIPSSNIDLHSAHC ARNLQKCEHCGEMVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVACEYCEF ELPAVELHEHQDVCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTSSQREIPSSNID LHSAHCARNLQKCEHCGEMVARKLMDEHYNESHAPVNCTLCKEIVTREIWDLHKSEQCPQRIVA CEYCEFELPAVELHEHQDVCGNRTEFCQTCKKYVRLREWIGHEIQCHANANANASAQTS(-) MNIRMYAETEQNFVKHARSMLDYVNGLGMKYSVMQMQMQMLLHRHQASEKFHRQTLTYIRHTAH VTFKSVNTVEKWWPESLWTSTTMKAMLQ*(-)
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 Os03g0356652_circ_g.1

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