Plant Circular RNA Database

Detail information of Os05g0592300_circ_g.1

			
						 General Information
					
						CircRNA Name
						Os05g0592300_circ_g.1
					
						ID in PlantcircBase
						osa_circ_029165
					
						Alias
						Os_ciR4883
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 29508549-29509228  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, find_circ
					
						Parent gene
						
							Os05g0592300						
					
						Parent gene annotation
						
							Protein of unknown function DUF1637 family protein. (Os05t059230
0-01);Similar to Cupin, RmlC-type. (Os05t0592300-02)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						4/2
					
						Tissues
						root/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
						Os05t0592300-01:3
Os05t0592300-02:3

General Information
CircRNA Name	Os05g0592300_circ_g.1
ID in PlantcircBase	osa_circ_029165
Alias	Os_ciR4883
Organism	Oryza sativa
Position	chr5: 29508549-29509228 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, find_circ
Parent gene	Os05g0592300
Parent gene annotation	Protein of unknown function DUF1637 family protein. (Os05t059230 0-01);Similar to Cupin, RmlC-type. (Os05t0592300-02)
Parent gene strand	+
Alternative splicing	NA
Support reads	4/2
Tissues	root/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	Os05t0592300-01:3 Os05t0592300-02:3

			
						 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  
						
							ACAGCTTGTGCTGTGCTTGACGTGATGGGACCCCCGTACAACCGCGCGGATGGAAGGGATTGCT
CATATTACGACGAATCCCCATACTTGAGTTCATCTGatgatttgaaaccacatgatgttggaat
tgagccgagtatgtcgtgtttcaagaatgccgattctaaagggcctcctcgggtgacttatcta
cattttta

						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: 114
Transcript exons: 29508549-29508608,29509175-29509228
ATGATTTGAAACCACATGATGTTGGAATTGAGCCGAGTATGTCGTGTTTCAAGAATGCCGCGGA
TGGAAGGGATTGCTCATATTACGACGAATCCCCATACTTGAGTTCATCTG
Transcript length: 489
Transcript exons: 29508549-29508667,29508752-29508914,29509022-29509228
ATGATTTGAAACCACATGATGTTGGAATTGAGCCGAGTATGTCGTGTTTCAAGAATGCCGATTC
TAAAGGGCCTCCTCGGGTGACTTATCTACATTTTTACGATTGCCCCAAGTTTTCGTTTGGTATC
TTCTGTTTACCGAAGTCAGCTGTCATTCCCCTCCACAATCATCCTGGGATGACAGTATTCTGCA
AGATACTGTTTGGCTCCATGCACCTCAAGTCCTATGACTGGGCTAAAAGTGCCCCAGATAATGA
TAATAATGCACTTGAGACCTCAGATGGAGCTCGTTTAGCAAAGGTAAATACAGATGCGGTTTTT
GATGCTTCATCGGAGACCACAGTTCTATACCCTGAAAATGGAGGGAATTTGCACTGTTTTACTG
CAAGGACAGCTTGTGCTGTGCTTGACGTGATGGGACCCCCGTACAACCGCGCGGATGGAAGGGA
TTGCTCATATTACGACGAATCCCCATACTTGAGTTCATCTG
						
						Genomic sequence
						
							ATGATTTGAAACCACATGATGTTGGAATTGAGCCGAGTATGTCGTGTTTCAAGAATGCCGATTC
TAAAGGGCCTCCTCGGGTGACTTATCTACATTTTTACGATTGCCCCAAGTTTTCGGTAATCTGA
CCTTGCATACTTTTTCCACGTAAATAACTTTTTGAAAGAAAAAGTTTTTACTGATGCTTTGTAT
GTTTTGTGCAGTTTGGTATCTTCTGTTTACCGAAGTCAGCTGTCATTCCCCTCCACAATCATCC
TGGGATGACAGTATTCTGCAAGATACTGTTTGGCTCCATGCACCTCAAGTCCTATGACTGGGCT
AAAAGTGCCCCAGATAATGATAATAATGCACTTGAGACCTCAGATGGTTAGTTGGTACATTTAT
GTTCTTATCCTTTTCAGCAACAGACTCTGTTTTAGGGAAATTTATTGCCCACGCTTCATTTTCT
GATATCCTTTTTGTCCTAACCACAGGAGCTCGTTTAGCAAAGGTAAATACAGATGCGGTTTTTG
ATGCTTCATCGGAGACCACAGTTCTATACCCTGAAAATGGAGGGAATTTGCACTGTTTTACTGC
AAGGACAGCTTGTGCTGTGCTTGACGTGATGGGACCCCCGTACAACCGCGCGGATGGAAGGGAT
TGCTCATATTACGACGAATCCCCATACTTGAGTTCATCTG

Sequences
Splice junction sequence	ACAGCTTGTGCTGTGCTTGACGTGATGGGACCCCCGTACAACCGCGCGGATGGAAGGGATTGCT CATATTACGACGAATCCCCATACTTGAGTTCATCTGatgatttgaaaccacatgatgttggaat tgagccgagtatgtcgtgtttcaagaatgccgattctaaagggcctcctcgggtgacttatcta cattttta
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: 114 Transcript exons: 29508549-29508608,29509175-29509228 ATGATTTGAAACCACATGATGTTGGAATTGAGCCGAGTATGTCGTGTTTCAAGAATGCCGCGGA TGGAAGGGATTGCTCATATTACGACGAATCCCCATACTTGAGTTCATCTG Transcript length: 489 Transcript exons: 29508549-29508667,29508752-29508914,29509022-29509228 ATGATTTGAAACCACATGATGTTGGAATTGAGCCGAGTATGTCGTGTTTCAAGAATGCCGATTC TAAAGGGCCTCCTCGGGTGACTTATCTACATTTTTACGATTGCCCCAAGTTTTCGTTTGGTATC TTCTGTTTACCGAAGTCAGCTGTCATTCCCCTCCACAATCATCCTGGGATGACAGTATTCTGCA AGATACTGTTTGGCTCCATGCACCTCAAGTCCTATGACTGGGCTAAAAGTGCCCCAGATAATGA TAATAATGCACTTGAGACCTCAGATGGAGCTCGTTTAGCAAAGGTAAATACAGATGCGGTTTTT GATGCTTCATCGGAGACCACAGTTCTATACCCTGAAAATGGAGGGAATTTGCACTGTTTTACTG CAAGGACAGCTTGTGCTGTGCTTGACGTGATGGGACCCCCGTACAACCGCGCGGATGGAAGGGA TTGCTCATATTACGACGAATCCCCATACTTGAGTTCATCTG
Genomic sequence	ATGATTTGAAACCACATGATGTTGGAATTGAGCCGAGTATGTCGTGTTTCAAGAATGCCGATTC TAAAGGGCCTCCTCGGGTGACTTATCTACATTTTTACGATTGCCCCAAGTTTTCGGTAATCTGA CCTTGCATACTTTTTCCACGTAAATAACTTTTTGAAAGAAAAAGTTTTTACTGATGCTTTGTAT GTTTTGTGCAGTTTGGTATCTTCTGTTTACCGAAGTCAGCTGTCATTCCCCTCCACAATCATCC TGGGATGACAGTATTCTGCAAGATACTGTTTGGCTCCATGCACCTCAAGTCCTATGACTGGGCT AAAAGTGCCCCAGATAATGATAATAATGCACTTGAGACCTCAGATGGTTAGTTGGTACATTTAT GTTCTTATCCTTTTCAGCAACAGACTCTGTTTTAGGGAAATTTATTGCCCACGCTTCATTTTCT GATATCCTTTTTGTCCTAACCACAGGAGCTCGTTTAGCAAAGGTAAATACAGATGCGGTTTTTG ATGCTTCATCGGAGACCACAGTTCTATACCCTGAAAATGGAGGGAATTTGCACTGTTTTACTGC AAGGACAGCTTGTGCTGTGCTTGACGTGATGGGACCCCCGTACAACCGCGCGGATGGAAGGGAT TGCTCATATTACGACGAATCCCCATACTTGAGTTCATCTG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_015854 						
					
						PMCS
						0.371094779

Conservation Information
Conserved circRNAs	osi_circ_015854
PMCS	0.371094779

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29508588-29509225(+)
						
						Potential amino acid sequence
						
							MSCFKNADSKGPPRVTYLHFYDCPKFSFGIFCLPKSAVIPLHNHPGMTVFCKILFGSMHLKSYD
WAKSAPDNDNNALETSDGARLAKVNTDAVFDASSETTVLYPENGGNLHCFTARTACAVLDVMGP
PYNRADGRDCSYYDESPYLSSSDDLKPHDVGIEPSMSCFKNADSKGPPRVTYLHFYDCPKFSFG
IFCLPKSAVIPLHNHPGMTVFCKILFGSMHLKSYDWAKSAPDNDNNALETSDGARLAKVNTDAV
FDASSETTVLYPENGGNLHCFTARTACAVLDVMGPPYNRADGRDCSYYDESPYLSSSDDLKPHD
VGIEPSMSCFKNADSKGPPRVTYLHFYDCPKFSFGIFCLPKSAVIPLHNHPGMTVFCKILFGSM
HLKSYDWAKSAPDNDNNALETSDGARLAKVNTDAVFDASSETTVLYPENGGNLHCFTARTACAV
LDVMGPPYNRADGRDCSYYDESPYLSSSDDLKPHDVGIEPSMSCFKNADSKGPPRVTYLHFYDC
PKFSFGIFCLPKSAVIPLHNHPGMTVFCKILFGSMHLKSYDWAKSAPDNDNNALETSDGARLAK
VNTDAVFDASSETTVLYPENGGNLHCFTARTACAVLDVMGPPYNRADGRDCSYYDESPYLSSS(
+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29508588-29509225(+)
Potential amino acid sequence	MSCFKNADSKGPPRVTYLHFYDCPKFSFGIFCLPKSAVIPLHNHPGMTVFCKILFGSMHLKSYD WAKSAPDNDNNALETSDGARLAKVNTDAVFDASSETTVLYPENGGNLHCFTARTACAVLDVMGP PYNRADGRDCSYYDESPYLSSSDDLKPHDVGIEPSMSCFKNADSKGPPRVTYLHFYDCPKFSFG IFCLPKSAVIPLHNHPGMTVFCKILFGSMHLKSYDWAKSAPDNDNNALETSDGARLAKVNTDAV FDASSETTVLYPENGGNLHCFTARTACAVLDVMGPPYNRADGRDCSYYDESPYLSSSDDLKPHD VGIEPSMSCFKNADSKGPPRVTYLHFYDCPKFSFGIFCLPKSAVIPLHNHPGMTVFCKILFGSM HLKSYDWAKSAPDNDNNALETSDGARLAKVNTDAVFDASSETTVLYPENGGNLHCFTARTACAV LDVMGPPYNRADGRDCSYYDESPYLSSSDDLKPHDVGIEPSMSCFKNADSKGPPRVTYLHFYDC PKFSFGIFCLPKSAVIPLHNHPGMTVFCKILFGSMHLKSYDWAKSAPDNDNNALETSDGARLAK VNTDAVFDASSETTVLYPENGGNLHCFTARTACAVLDVMGPPYNRADGRDCSYYDESPYLSSS( +)
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 Os05g0592300_circ_g.1

Address

Any questions?

Supported by