Plant Circular RNA Database

Detail information of Os11g0433200_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os11g0433200_circ_g.3
					
						ID in PlantcircBase
						osa_circ_009247
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr11: 14001174-14004152  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os11g0433200						
					
						Parent gene annotation
						
							Protease-associated domain, PA domain containing protein. (Os11t
0433200-01);Similar to predicted protein. (Os11t0433200-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os11g0433200_circ_g.1 Os11g0433200_circ_g.2 Os11g0433200_circ_g.4 Os11g0433200_circ_g.5 						
					
						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
						Os11t0433200-01:7
Os11t0433200-02:7

General Information
CircRNA Name	Os11g0433200_circ_g.3
ID in PlantcircBase	osa_circ_009247
Alias	NA
Organism	Oryza sativa
Position	chr11: 14001174-14004152 JBrowse»
Reference genome	IRGSP-1.0.38
Type	u-circRNA
Identification method	CIRCexplorer
Parent gene	Os11g0433200
Parent gene annotation	Protease-associated domain, PA domain containing protein. (Os11t 0433200-01);Similar to predicted protein. (Os11t0433200-02)
Parent gene strand	+
Alternative splicing	Os11g0433200_circ_g.1 Os11g0433200_circ_g.2 Os11g0433200_circ_g.4 Os11g0433200_circ_g.5
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	Os11t0433200-01:7 Os11t0433200-02:7

			
						 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  
						
							TCTTAAGAATACCTCGTTTCTTTGATCCATGGGGTGGCTATGACATGATAGGCTTTGGTGACAT
TATTTTCCCTGGATTGCTAGTTGCATTCAGCTACAGtggaggtgcagctatattcaccaaatcg
accagttgtagacctttcagcatgcttcttgtggataatggctataggaaccatagtttgtgct
tcactctg

									
								

					

						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
						
							TGGAGGTGCAGCTATATTCACCAAATCGACCAGTTGTAGACCTTTCAGCATGCTTCTTGTGGAT
AATGGCTATAGGAACCATAGTTTGTGCTTCACTCTGGACTGAATTTGTTGCATGCGAGCAAGTT
GATGAGCGTTATAATCAGTTGACACGGAAGGTTTTGACTTTTGTGCTTTACCTTTCTATCCAAA
TTATGTCATTTTAATTTTATATTTTCACACACATATGGTAGCACATTCATACCCATTTTCTCTT
GGTACCACTCTACAATTTTTATTCTTACGATGTGAATAGTTTTTTTTACCACCTTAAGTCCTTA
AGTGAAATGGCTTGAATACTTTGCACAAGTGGCAAAATATGTGATGCAGACTGCAGTGCCACTA
AACAATGCATCACATATAGAAAATAGATAAGTTATTGATAAAACATGCAATATATAATTGAAGC
ATATAAAGACCAATTTCAACTCTATGATGTCTTCGGAAAATTTTGCTGTGAGTTCACTATTTAA
TGGAATCATGTTACAATATGCCTTGTGTTCAATTTTGGTTTTCATGTATTCTTTTAAAAAATAA
AATCACATGTCTTCCAAGTATATTCTTTTCAATCATTGGATGTTGTTTTTATGTAACCTGCCTT
TCAGCATTTCAAAATACAACAACTTATCTTGTTGCCTTGCCAAGAACGTCCTTGCTGCTTAGAA
CATATCTAGGTTCTGTTATATCATATTTTTGTAGTTCGTCACTGGATTATGTTTTACTGACAGA
TTTGTTCCTTTTCGTGCTAAACAGGATGGGCCTAATTCTGGAACAACCAACAGAGAAGATAAAG
AAATCTTCGAGATCAGTGCCAAGGGGGCTATTGTTTTTATTTTAGTAGCTTCAGTTTTCCTCCT
CCTCCTCTTCTACTTCATGTCTTCTTGGTTCGTCTGGCTGCTAATTGTATTATTCTGCATTGGT
GGTATTGAGGTATTTTCTCATACATTTGTTATGTGCATTGTGCTATTTCTTATTGGTACCATCT
TAACACTTCTTTCCCTTTTGTTTTCATTGAATGTTGAAGTATACCTTTTTTTTTTTTTTCATTT
TCCTTTGTTGAGAGATTCAGCTATGAGACTGACTATGAATTTTACAGGGTATGCATGTTTGCTT
GGTCACACTTCTCACTAGGTAACAAATGAACTAATTTGGATATAGGAATTTGGTCACCGCTGTT
CACTTTATTTGCCTTTCTTTTCTTATTTGATGTACTTCACCTAACAGGATTTGCAAGGATTGTG
GACAGAAGACTGTACAACTCCCCTTTTTTGGGGAGGTGTTGACCCTTTCTGTTCTGATTGTACC
ATTTTGCACTATCTTTGCAATTCTTTGGGCTGTCTATCGGCATGCTTCTTTTGCTTGGATAGGC
CAAGACATCCTTGTAAGACTAATTTATCTTCATTCTTGTGTGGTCTTTCTATATTTTATATATG
ACCTTGTATGGTGTGCTTCTCACTAGGAGGTGCATTTTTTTTTCTATATTTTGCTTCAGTACCA
TTCAAAAGTATGCAACTAACTGTACATGCCTTCAGAGGTACCAGCAAGCAAGTCTGGATTCACA
TAATATAAGTATATTACAATATACTGTAAAGGCTAACATAGTGTTACTTCTGAAATCAATCTGG
ATCCAAGTTGTATATTTCCAGTGGGTCAGCTAACATGTCTCCTTGTAAAATTTGCGCACTGTAA
CGTGGTTTGTTCCTTTCAAAAATATTTGGTTTGAAGATTTTTTTTGCATAAATATCCAATAATT
AACATTGCTTTTACAAAAAAAAAATATATATTAGCCTGATTGTTTGGTTCCTTGCAAAATGTAG
ACACCACTATGCTCGTTTCACACTATTCTGACTGGTTTTGGATAAGATACCATAGCTGGATATT
GTATACCATAGTTTCTAAGCTGGATATTGTATACCACAGTTTCCAAGTTGGATATTGTATCAAC
ATTTCATGCATGTGTCAAAATTTATGTTGTCTGGTTGTTCCATTTTATTTTTATTTTTGAGATG
ATTTTATTTTGAAGTGTGGAATAGTCTTATAACAAATCTATGTTTTAGTTGCACATTTGTAATA
ATTCATACGTGAGATGTTAAATTTCTTGCCTTCTGTGTTTTGAGACATGTGAGCAGAGCCTTTG
CAAAATCAATTAGATATTATTAACCATGGGGTTTGTTTATTGTCCTCAGGGAATCTGCCTGATG
ATAACTGTGCTTCAAATGGCACGCTTACCAAATATCAGGGTATTGCCATGTCTTTAAGTTTAAT
GTAGTCGTGCAAAACCTATATGTTTCATATGTGTATCAGAATTATTCATCATGACTATAACTTT
GCAGGTTGCATCAGCTCTTCTTAGTGCTGCATTTGTGTATGATGTTTTCTGGGTGTTCATTTCA
CCTCTTATATTCCATGAAAGTGTCATGATTGCAGTAAGTGCATGATTTTTATTTTTTTGCAACA
ATCTTTTTATTACTTACTGTTTAGTACTGTGGATTTATCCAGTGGTGATAATAGTACCATAATA
TGCTGCATACGTGGCTCATGAATCTACTAGTTTCCATGTTATTTTCAAAACCAGATAGTAGCAC
ATGCTTACTAATAGTAATAGCGTACTATTTTGTTAGTTTGTTCTATGTTTCAATCTAATTCGAA
AGCATTCACTTGGAGGTTAGAAAATTTGGTGATAAGACAATTCATATAAGTTTGATATGTGTAT
CTTCAGTTAGATCTGTCCTGTAAGATATACCTTTTATCTATTATGAAGTGTTATAGTGTTAGAT
ATGATTCTATCCATACTGCACAGGTTGCTCGTGGTGATAACTCTGGGGAAGCAATTCCGATGCT
CTTAAGAATACCTCGTTTCTTTGATCCATGGGGTGGCTATGACATGATAGGCTTTGGTGACATT
ATTTTCCCTGGATTGCTAGTTGCATTCAGCTACAG
						
					

			
		

Sequences
Splice junction sequence	TCTTAAGAATACCTCGTTTCTTTGATCCATGGGGTGGCTATGACATGATAGGCTTTGGTGACAT TATTTTCCCTGGATTGCTAGTTGCATTCAGCTACAGtggaggtgcagctatattcaccaaatcg accagttgtagacctttcagcatgcttcttgtggataatggctataggaaccatagtttgtgct tcactctg
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	TGGAGGTGCAGCTATATTCACCAAATCGACCAGTTGTAGACCTTTCAGCATGCTTCTTGTGGAT AATGGCTATAGGAACCATAGTTTGTGCTTCACTCTGGACTGAATTTGTTGCATGCGAGCAAGTT GATGAGCGTTATAATCAGTTGACACGGAAGGTTTTGACTTTTGTGCTTTACCTTTCTATCCAAA TTATGTCATTTTAATTTTATATTTTCACACACATATGGTAGCACATTCATACCCATTTTCTCTT GGTACCACTCTACAATTTTTATTCTTACGATGTGAATAGTTTTTTTTACCACCTTAAGTCCTTA AGTGAAATGGCTTGAATACTTTGCACAAGTGGCAAAATATGTGATGCAGACTGCAGTGCCACTA AACAATGCATCACATATAGAAAATAGATAAGTTATTGATAAAACATGCAATATATAATTGAAGC ATATAAAGACCAATTTCAACTCTATGATGTCTTCGGAAAATTTTGCTGTGAGTTCACTATTTAA TGGAATCATGTTACAATATGCCTTGTGTTCAATTTTGGTTTTCATGTATTCTTTTAAAAAATAA AATCACATGTCTTCCAAGTATATTCTTTTCAATCATTGGATGTTGTTTTTATGTAACCTGCCTT TCAGCATTTCAAAATACAACAACTTATCTTGTTGCCTTGCCAAGAACGTCCTTGCTGCTTAGAA CATATCTAGGTTCTGTTATATCATATTTTTGTAGTTCGTCACTGGATTATGTTTTACTGACAGA TTTGTTCCTTTTCGTGCTAAACAGGATGGGCCTAATTCTGGAACAACCAACAGAGAAGATAAAG AAATCTTCGAGATCAGTGCCAAGGGGGCTATTGTTTTTATTTTAGTAGCTTCAGTTTTCCTCCT CCTCCTCTTCTACTTCATGTCTTCTTGGTTCGTCTGGCTGCTAATTGTATTATTCTGCATTGGT GGTATTGAGGTATTTTCTCATACATTTGTTATGTGCATTGTGCTATTTCTTATTGGTACCATCT TAACACTTCTTTCCCTTTTGTTTTCATTGAATGTTGAAGTATACCTTTTTTTTTTTTTTCATTT TCCTTTGTTGAGAGATTCAGCTATGAGACTGACTATGAATTTTACAGGGTATGCATGTTTGCTT GGTCACACTTCTCACTAGGTAACAAATGAACTAATTTGGATATAGGAATTTGGTCACCGCTGTT CACTTTATTTGCCTTTCTTTTCTTATTTGATGTACTTCACCTAACAGGATTTGCAAGGATTGTG GACAGAAGACTGTACAACTCCCCTTTTTTGGGGAGGTGTTGACCCTTTCTGTTCTGATTGTACC ATTTTGCACTATCTTTGCAATTCTTTGGGCTGTCTATCGGCATGCTTCTTTTGCTTGGATAGGC CAAGACATCCTTGTAAGACTAATTTATCTTCATTCTTGTGTGGTCTTTCTATATTTTATATATG ACCTTGTATGGTGTGCTTCTCACTAGGAGGTGCATTTTTTTTTCTATATTTTGCTTCAGTACCA TTCAAAAGTATGCAACTAACTGTACATGCCTTCAGAGGTACCAGCAAGCAAGTCTGGATTCACA TAATATAAGTATATTACAATATACTGTAAAGGCTAACATAGTGTTACTTCTGAAATCAATCTGG ATCCAAGTTGTATATTTCCAGTGGGTCAGCTAACATGTCTCCTTGTAAAATTTGCGCACTGTAA CGTGGTTTGTTCCTTTCAAAAATATTTGGTTTGAAGATTTTTTTTGCATAAATATCCAATAATT AACATTGCTTTTACAAAAAAAAAATATATATTAGCCTGATTGTTTGGTTCCTTGCAAAATGTAG ACACCACTATGCTCGTTTCACACTATTCTGACTGGTTTTGGATAAGATACCATAGCTGGATATT GTATACCATAGTTTCTAAGCTGGATATTGTATACCACAGTTTCCAAGTTGGATATTGTATCAAC ATTTCATGCATGTGTCAAAATTTATGTTGTCTGGTTGTTCCATTTTATTTTTATTTTTGAGATG ATTTTATTTTGAAGTGTGGAATAGTCTTATAACAAATCTATGTTTTAGTTGCACATTTGTAATA ATTCATACGTGAGATGTTAAATTTCTTGCCTTCTGTGTTTTGAGACATGTGAGCAGAGCCTTTG CAAAATCAATTAGATATTATTAACCATGGGGTTTGTTTATTGTCCTCAGGGAATCTGCCTGATG ATAACTGTGCTTCAAATGGCACGCTTACCAAATATCAGGGTATTGCCATGTCTTTAAGTTTAAT GTAGTCGTGCAAAACCTATATGTTTCATATGTGTATCAGAATTATTCATCATGACTATAACTTT GCAGGTTGCATCAGCTCTTCTTAGTGCTGCATTTGTGTATGATGTTTTCTGGGTGTTCATTTCA CCTCTTATATTCCATGAAAGTGTCATGATTGCAGTAAGTGCATGATTTTTATTTTTTTGCAACA ATCTTTTTATTACTTACTGTTTAGTACTGTGGATTTATCCAGTGGTGATAATAGTACCATAATA TGCTGCATACGTGGCTCATGAATCTACTAGTTTCCATGTTATTTTCAAAACCAGATAGTAGCAC ATGCTTACTAATAGTAATAGCGTACTATTTTGTTAGTTTGTTCTATGTTTCAATCTAATTCGAA AGCATTCACTTGGAGGTTAGAAAATTTGGTGATAAGACAATTCATATAAGTTTGATATGTGTAT CTTCAGTTAGATCTGTCCTGTAAGATATACCTTTTATCTATTATGAAGTGTTATAGTGTTAGAT ATGATTCTATCCATACTGCACAGGTTGCTCGTGGTGATAACTCTGGGGAAGCAATTCCGATGCT CTTAAGAATACCTCGTTTCTTTGATCCATGGGGTGGCTATGACATGATAGGCTTTGGTGACATT ATTTTCCCTGGATTGCTAGTTGCATTCAGCTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.107233596

Conservation Information
Conserved circRNAs	NA
PMCS	0.107233596

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14001240-14001276(+)
14001257-14004135(-)
						
						Potential amino acid sequence
						
							MAIGTIVCASLWTEFVACEQVDERYNQLTRKDGPNSGTTNREDKEIFEISAKGAIVFILVASVF
LLLLFYFMSSWFVWLLIVLFCIGGIEGMHVCLVTLLTRICKDCGQKTVQLPFFGEVLTLSVLIV
PFCTIFAILWAVYRHASFAWIGQDILGICLMITVLQMARLPNIRVASALLSAAFVYDVFWVFIS
PLIFHESVMIAVARGDNSGEAIPMLLRIPRFFDPWGGYDMIGFGDIIFPGLLVAFSYSGGAAIF
TKSTSCRPFSMLLVDNGYRNHSLCFTLD*(+)
MVPIAIIHKKHAERSTTGRFGEYSCTSTVAECN*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14001240-14001276(+) 14001257-14004135(-)
Potential amino acid sequence	MAIGTIVCASLWTEFVACEQVDERYNQLTRKDGPNSGTTNREDKEIFEISAKGAIVFILVASVF LLLLFYFMSSWFVWLLIVLFCIGGIEGMHVCLVTLLTRICKDCGQKTVQLPFFGEVLTLSVLIV PFCTIFAILWAVYRHASFAWIGQDILGICLMITVLQMARLPNIRVASALLSAAFVYDVFWVFIS PLIFHESVMIAVARGDNSGEAIPMLLRIPRFFDPWGGYDMIGFGDIIFPGLLVAFSYSGGAAIF TKSTSCRPFSMLLVDNGYRNHSLCFTLD(+) MVPIAIIHKKHAERSTTGRFGEYSCTSTVAECN(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os11g0433200_circ_g.3

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