Plant Circular RNA Database

Detail information of Os02g0146700_circ_g.4

			
						 General Information
					
						CircRNA Name
						Os02g0146700_circ_g.4
					
						ID in PlantcircBase
						osa_circ_013126
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 2566842-2568026  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0146700						
					
						Parent gene annotation
						
							Similar to predicted protein. (Os02t0146700-01);Similar to PSMD2
 subunit (Fragment). (Os02t0146700-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0141300_circ_g.1 Os02g0141300_circ_igg.1 Os02g0141300_circ_g.2 Os02g0141300_circ_g.3 Os02g0141300_circ_g.4 Os02g0141300_circ_g.5 Os02g0141300_circ_g.6 Os02g0141300_circ_g.7 Os02g0142250_circ_ag.1 Os02g0142300_circ_g.1 Os02g0142450_circ_g.1 Os02g0142450_circ_g.2 Os02g0142450_circ_g.3 Os02g0142500_circ_igg.1 Os02g0142500_circ_ag.1 Os02g0142500_circ_ag.2 Os02g0143100_circ_g.1 Os02g0143100_circ_g.2 Os02g0143100_circ_g.3 Os02g0143100_circ_g.4 Os02g0143100_circ_g.5 Os02g0143100_circ_g.6 Os02g0143100_circ_g.7 Os02g0143200_circ_g.1 Os02g0143200_circ_g.2 Os02g0145000_circ_g.1 EPlOSAG00000039494_circ_ig.1 EPlOSAG00000039494_circ_ig.2 ENSRNA049472287_circ_ig.1 Os02g0146500_circ_g.1 Os02g0146500_circ_g.2 Os02g0146600_circ_g.1 Os02g0146600_circ_g.2 Os02g0146600_circ_g.3 Os02g0146700_circ_g.1 Os02g0146700_circ_g.2 Os02g0146700_circ_g.3 Os02g0146700_circ_g.5 Os02g0146900_circ_g.1 Os02g0147100_circ_ag.1 Os02g0147100_circ_ag.2 Os02g0147100_circ_ag.3 Os02g0147100_circ_ag.4 Os02g0147100_circ_ag.5 Os02g0147700_circ_igg.1 Os02g0147700_circ_igg.2 						
					
						Support reads
						1
					
						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
						Os02t0146700-02:6
Os02t0146700-01:5

General Information
CircRNA Name	Os02g0146700_circ_g.4
ID in PlantcircBase	osa_circ_013126
Alias	NA
Organism	Oryza sativa
Position	chr2: 2566842-2568026 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0146700
Parent gene annotation	Similar to predicted protein. (Os02t0146700-01);Similar to PSMD2 subunit (Fragment). (Os02t0146700-02)
Parent gene strand	+
Alternative splicing	Os02g0141300_circ_g.1 Os02g0141300_circ_igg.1 Os02g0141300_circ_g.2 Os02g0141300_circ_g.3 Os02g0141300_circ_g.4 Os02g0141300_circ_g.5 Os02g0141300_circ_g.6 Os02g0141300_circ_g.7 Os02g0142250_circ_ag.1 Os02g0142300_circ_g.1 Os02g0142450_circ_g.1 Os02g0142450_circ_g.2 Os02g0142450_circ_g.3 Os02g0142500_circ_igg.1 Os02g0142500_circ_ag.1 Os02g0142500_circ_ag.2 Os02g0143100_circ_g.1 Os02g0143100_circ_g.2 Os02g0143100_circ_g.3 Os02g0143100_circ_g.4 Os02g0143100_circ_g.5 Os02g0143100_circ_g.6 Os02g0143100_circ_g.7 Os02g0143200_circ_g.1 Os02g0143200_circ_g.2 Os02g0145000_circ_g.1 EPlOSAG00000039494_circ_ig.1 EPlOSAG00000039494_circ_ig.2 ENSRNA049472287_circ_ig.1 Os02g0146500_circ_g.1 Os02g0146500_circ_g.2 Os02g0146600_circ_g.1 Os02g0146600_circ_g.2 Os02g0146600_circ_g.3 Os02g0146700_circ_g.1 Os02g0146700_circ_g.2 Os02g0146700_circ_g.3 Os02g0146700_circ_g.5 Os02g0146900_circ_g.1 Os02g0147100_circ_ag.1 Os02g0147100_circ_ag.2 Os02g0147100_circ_ag.3 Os02g0147100_circ_ag.4 Os02g0147100_circ_ag.5 Os02g0147700_circ_igg.1 Os02g0147700_circ_igg.2
Support reads	1
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	Os02t0146700-02:6 Os02t0146700-01:5

			
						 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  
						
							TGCTATTCTCATGGAGTACATTAACAAGGATGACACAAACATTCGGATTGGGGCAATCTTGGGT
CTTGGTATTGCATATGCGGGTTCTCAGAAAGAGGAGtcaatgcagtatgtgaagcaggtctaca
ccgcaactgaggatcttcagctcaaaaagcagttctcattcatcattgcacgccatgtataaat
ctctcacg

						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
						
							TCAATGCAGTATGTGAAGCAGGTCTACACCGCAACTGAGGATCTTCAGCTCAAAAAGCAGTTCT
CATTCATCATTGCACGCCATGTATAAATCTCTCACGCACTATCTACCTTGGTTGCCACCTTTTG
CATCTTATGCTAAAAGTAGCAATCCCTTAAATTTGACCCAAGCGCTTCTCTTCTGCAGGGTTTG
GCCATGGAGATTGACGACGAGATAGCTGCCGATGGCAATGATAAGGAGGGTTTGCAAGAAATCG
TTAATAATAGTAAGCTGAGTGAGGGGTACCTCACCCTTGCTCGAGATATCGAAGTGATGGAAGC
AAAATCTCCAGAGGATATATATAAGGTCATCTATATTTTACTATCAATGTTTATTAAGGTTGCT
TTTTTCATTCATAATAATTAATATTTGTATTTAACAATCTACAGGTCCATTTAATTGATGGGCG
TGGTGCCAGCTCCAGTCTTGATTCTGCAAGACAAAATTTAGCTGCAACATTTGTAAATGCATTC
GTAAATGCTGGATTTGGTCAGGTTAGCTCTACAAACAATATGTTACTTTTAGTTCTTTCCGAGG
AAAGAATGAATCTCAAGACCATATCTTCTGTGCAGGATAAGTTGATGACTGCTCCATCTGATTC
TTCCAGTAGCGGAGCTTCTGGAAACTGGTTATTCAAGAACAAGGAACATGGGAAAGCCAGCGCA
GCAGCTAGCCTGGTAAGTTACATTGTTATTGATATTTGACAAACTCTACAAACCATTGACAACT
GAGTTCTTTAACTGGTCAACAATAATAACAAAAGTACTGTTTCACCTTTTCAGGGAATGATTCT
CTTGTGGGATACTGATTCTGGACTTGCTCAGCTTGACAAGTACTTACATAGTAATGATGCTCAT
GTTGTTGCTGGAGCTTTGCTAGGTATTGGTATTGTCACATGTGGTGTGAAGAATGATTGTGATC
CAGTATGTGCTCCACTGTCTAAGTTTCCCAACCTCCATCCTACTGATTAATATTGCAAATCTTT
TCTTAATACCCAAAATTTTGCAAATACTTTCTTTAATACCCTAAATTTGCTGCCAGGCACTTGC
TATTCTCATGGAGTACATTAACAAGGATGACACAAACATTCGGATTGGGGCAATCTTGGGTCTT
GGTATTGCATATGCGGGTTCTCAGAAAGAGGAG

Sequences
Splice junction sequence	TGCTATTCTCATGGAGTACATTAACAAGGATGACACAAACATTCGGATTGGGGCAATCTTGGGT CTTGGTATTGCATATGCGGGTTCTCAGAAAGAGGAGtcaatgcagtatgtgaagcaggtctaca ccgcaactgaggatcttcagctcaaaaagcagttctcattcatcattgcacgccatgtataaat ctctcacg
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	TCAATGCAGTATGTGAAGCAGGTCTACACCGCAACTGAGGATCTTCAGCTCAAAAAGCAGTTCT CATTCATCATTGCACGCCATGTATAAATCTCTCACGCACTATCTACCTTGGTTGCCACCTTTTG CATCTTATGCTAAAAGTAGCAATCCCTTAAATTTGACCCAAGCGCTTCTCTTCTGCAGGGTTTG GCCATGGAGATTGACGACGAGATAGCTGCCGATGGCAATGATAAGGAGGGTTTGCAAGAAATCG TTAATAATAGTAAGCTGAGTGAGGGGTACCTCACCCTTGCTCGAGATATCGAAGTGATGGAAGC AAAATCTCCAGAGGATATATATAAGGTCATCTATATTTTACTATCAATGTTTATTAAGGTTGCT TTTTTCATTCATAATAATTAATATTTGTATTTAACAATCTACAGGTCCATTTAATTGATGGGCG TGGTGCCAGCTCCAGTCTTGATTCTGCAAGACAAAATTTAGCTGCAACATTTGTAAATGCATTC GTAAATGCTGGATTTGGTCAGGTTAGCTCTACAAACAATATGTTACTTTTAGTTCTTTCCGAGG AAAGAATGAATCTCAAGACCATATCTTCTGTGCAGGATAAGTTGATGACTGCTCCATCTGATTC TTCCAGTAGCGGAGCTTCTGGAAACTGGTTATTCAAGAACAAGGAACATGGGAAAGCCAGCGCA GCAGCTAGCCTGGTAAGTTACATTGTTATTGATATTTGACAAACTCTACAAACCATTGACAACT GAGTTCTTTAACTGGTCAACAATAATAACAAAAGTACTGTTTCACCTTTTCAGGGAATGATTCT CTTGTGGGATACTGATTCTGGACTTGCTCAGCTTGACAAGTACTTACATAGTAATGATGCTCAT GTTGTTGCTGGAGCTTTGCTAGGTATTGGTATTGTCACATGTGGTGTGAAGAATGATTGTGATC CAGTATGTGCTCCACTGTCTAAGTTTCCCAACCTCCATCCTACTGATTAATATTGCAAATCTTT TCTTAATACCCAAAATTTTGCAAATACTTTCTTTAATACCCTAAATTTGCTGCCAGGCACTTGC TATTCTCATGGAGTACATTAACAAGGATGACACAAACATTCGGATTGGGGCAATCTTGGGTCTT GGTATTGCATATGCGGGTTCTCAGAAAGAGGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_012128 						
					
						PMCS
						0.248520232

Conservation Information
Conserved circRNAs	osi_circ_012128
PMCS	0.248520232

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2566846-2568023(+)
2567791-2566854(+)
						
						Potential amino acid sequence
						
							MQYVKQVYTATEDLQLKKQFSFIIARHGLAMEIDDEIAADGNDKEGLQEIVNNSKLSEGYLTLA
RDIEVMEAKSPEDIYKVHLIDGRGASSSLDSARQNLAATFVNAFVNAGFGQDKLMTAPSDSSSS
GASGNWLFKNKEHGKASAAASLGMILLWDTDSGLAQLDKYLHSNDAHVVAGALLGIGIVTCGVK
NDCDPALAILMEYINKDDTNIRIGAILGLGIAYAGSQKEESMQYVKQVYTATEDLQLKKQFSFI
IARHGLAMEIDDEIAADGNDKEGLQEIVNNSKLSEGYLTLARDIEVMEAKSPEDIYKVHLIDGR
GASSSLDSARQNLAATFVNAFVNAGFGQDKLMTAPSDSSSSGASGNWLFKNKEHGKASAAASLG
MILLWDTDSGLAQLDKYLHSNDAHVVAGALLGIGIVTCGVKNDCDPALAILMEYINKDDTNIRI
GAILGLGIAYAGSQKEESMQYVKQVYTATEDLQLKKQFSFIIARHGLAMEIDDEIAADGNDKEG
LQEIVNNSKLSEGYLTLARDIEVMEAKSPEDIYKVHLIDGRGASSSLDSARQNLAATFVNAFVN
AGFGQDKLMTAPSDSSSSGASGNWLFKNKEHGKASAAASLGMILLWDTDSGLAQLDKYLHSNDA
HVVAGALLGIGIVTCGVKNDCDPALAILMEYINKDDTNIRIGAILGLGIAYAGSQKEESMQYVK
QVYTATEDLQLKKQFSFIIARHGLAMEIDDEIAADGNDKEGLQEIVNNSKLSEGYLTLARDIEV
MEAKSPEDIYKVHLIDGRGASSSLDSARQNLAATFVNAFVNAGFGQDKLMTAPSDSSSSGASGN
WLFKNKEHGKASAAASLGMILLWDTDSGLAQLDKYLHSNDAHVVAGALLGIGIVTCGVKNDCDP
ALAILMEYINKDDTNIRIGAILGLGIAYAGSQKEE(+)
MIVIQHLLFSWSTLTRMTQTFGLGQSWVLVLHMRVLRKRSQCSM*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2566846-2568023(+) 2567791-2566854(+)
Potential amino acid sequence	MQYVKQVYTATEDLQLKKQFSFIIARHGLAMEIDDEIAADGNDKEGLQEIVNNSKLSEGYLTLA RDIEVMEAKSPEDIYKVHLIDGRGASSSLDSARQNLAATFVNAFVNAGFGQDKLMTAPSDSSSS GASGNWLFKNKEHGKASAAASLGMILLWDTDSGLAQLDKYLHSNDAHVVAGALLGIGIVTCGVK NDCDPALAILMEYINKDDTNIRIGAILGLGIAYAGSQKEESMQYVKQVYTATEDLQLKKQFSFI IARHGLAMEIDDEIAADGNDKEGLQEIVNNSKLSEGYLTLARDIEVMEAKSPEDIYKVHLIDGR GASSSLDSARQNLAATFVNAFVNAGFGQDKLMTAPSDSSSSGASGNWLFKNKEHGKASAAASLG MILLWDTDSGLAQLDKYLHSNDAHVVAGALLGIGIVTCGVKNDCDPALAILMEYINKDDTNIRI GAILGLGIAYAGSQKEESMQYVKQVYTATEDLQLKKQFSFIIARHGLAMEIDDEIAADGNDKEG LQEIVNNSKLSEGYLTLARDIEVMEAKSPEDIYKVHLIDGRGASSSLDSARQNLAATFVNAFVN AGFGQDKLMTAPSDSSSSGASGNWLFKNKEHGKASAAASLGMILLWDTDSGLAQLDKYLHSNDA HVVAGALLGIGIVTCGVKNDCDPALAILMEYINKDDTNIRIGAILGLGIAYAGSQKEESMQYVK QVYTATEDLQLKKQFSFIIARHGLAMEIDDEIAADGNDKEGLQEIVNNSKLSEGYLTLARDIEV MEAKSPEDIYKVHLIDGRGASSSLDSARQNLAATFVNAFVNAGFGQDKLMTAPSDSSSSGASGN WLFKNKEHGKASAAASLGMILLWDTDSGLAQLDKYLHSNDAHVVAGALLGIGIVTCGVKNDCDP ALAILMEYINKDDTNIRIGAILGLGIAYAGSQKEE(+) MIVIQHLLFSWSTLTRMTQTFGLGQSWVLVLHMRVLRKRSQCSM*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0146700_circ_g.4

Address

Any questions?

Supported by