Plant Circular RNA Database

Detail information of Os05g0596600_circ_g.3

			
						 General Information
					
						CircRNA Name
						Os05g0596600_circ_g.3
					
						ID in PlantcircBase
						osa_circ_029249
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr5: 29734043-29736170  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, KNIFE, PcircRNA_finder
					
						Parent gene
						
							Os05g0596600						
					
						Parent gene annotation
						
							Similar to SMC5 protein. (Os05t0596600-01);Similar to SMC5 prote
in. (Os05t0596600-02)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Os05g0596600_circ_g.4 Os05g0596600_circ_g.5 Os05g0596600_circ_g.6 Os05g0596600_circ_g.7 Os05g0596600_circ_g.8 Os05g0596600_circ_g.9 						
					
						Support reads
						1
					
						Tissues
						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
						Os05t0596600-02:7

General Information
CircRNA Name	Os05g0596600_circ_g.3
ID in PlantcircBase	osa_circ_029249
Alias	NA
Organism	Oryza sativa
Position	chr5: 29734043-29736170 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer, KNIFE, PcircRNA_finder
Parent gene	Os05g0596600
Parent gene annotation	Similar to SMC5 protein. (Os05t0596600-01);Similar to SMC5 prote in. (Os05t0596600-02)
Parent gene strand	-
Alternative splicing	Os05g0596600_circ_g.4 Os05g0596600_circ_g.5 Os05g0596600_circ_g.6 Os05g0596600_circ_g.7 Os05g0596600_circ_g.8 Os05g0596600_circ_g.9
Support reads	1
Tissues	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	Os05t0596600-02:7

			
						 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  
						
							ACCTGGACCACCGATAGTGGTTATCTGGGGTCCAAAAGTCAGAAATGCCTAGCTTTGGTACATC
ATCTGCTCTATTGTGTGTTTCATCTGTACCTATATActcaagaaacttttttgcaaggtcttcg
gtgatcatagctattgactctgcatgctgttttgcattagacaactgctgcttatgctcttgag
tttttctt

									
								

					

						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
						
							CTCAAGAAACTTTTTTGCAAGGTCTTCGGTGATCATAGCTATTGACTCTGCATGCTGTTTTGCA
TTAGACAACTGCTGCTTATGCTCTTGAGTTTTTCTTTTACCTGATTAGAGGAACATATGTCATG
TGATAGTGCCAGCATGAGACAAATGGAATCAATCACGAAAGTAATGTATTGCCAACTTGCCATA
TGCTACACTACTCTCAATCATTACAGAAATGAAATTTCCTACAAAGGCCTTTATAAGCTTGCCA
GGCACATTCAACCGCAGTTGACCATTTATAGTACCAGTCTCAAAACATAGTTGTCTTTATTCAA
AACTCAAAAGCCCAAGAGAGCATCTGTTCAACTTTGTCAGTCAATACTTAACAGATTCTTAGAA
CACCTCAGAAAATAAAAATACACTTTTTTATGTAGAGTAGTTGTTAACTTACGACATGTTAGAA
TACCCATGACTTGCCTGGGACTAAAGTCTAACGTTGTAGAATATTAGATATATCCATTCAAAAA
TCAGCAAGAACTCACATGGTTCTGATATAGCTATACTTCAAAAAAAAATCTACTCAGGAGATGC
ATGATGGATTTTGAATAGTCTTCACCTCTACAAACCAAACAGACCTGAGGAATGAGCATGACAT
GAAAGTGAGCATAAGATTTGTCAACCCAAAGGCAAAAACTCAAAGAAAAAATTGCCTTGGACCC
TAAGCCACTTTCCAAAATATTTGCCAAACTGAGTGGTTAGAAACAACAAAAGAATGGATTGAAA
CATCAACTCACAGTTTTCATATTCTTTAGCAGCTTCAATAGCATTCTTTTCAAGTTTCTTCACA
TCCTTTTCCATCTCCCATATCTATCAGATGATTAATGAAGGACAGATGATTACATGTGCGAATT
GTTTCGGTACAAGGAACGGGATAAGACATAAGCAAATATGGCAATTTTCTGGTGTAACATGTGC
AAATTATGTGTGCTTTAGACCAAACTAGTATTTTAGTAATTTATATATCTTATTGCAAGCAGCC
AAACATTTGTAAAACAGCTGTGATTAATTGGGTGATTAATTGCAAAGTTTCCAAGCGGAGATTA
ATTGGGTCACTGCAAGGTAATCAAAATGCAAGAAATATGCACAGTTCAATTCAAGAAGTTTTGT
GTTATGAAAGTAACTAGTTTCTCACAAAGCATACCTTTGTATCGAGCTCAATGGAAGCCATGTT
CTTTTGTGTGCAACTCCATTTGAGAGCAACAGCTTCAATAAGTAAATCCTGAGAGAATTTAAAT
AAAATTTATGCAAGCACAAATGTGATGATGATCTTCAAGATAAACAAAATATTGTATCATCGTC
AGAAGCTCCAAGCTCTGTTAAGTGCTAACCTTGAGTTTTAGCACTAGTTCATATCGCTGATCAT
TTAACTTTGCCGCCTGATCAACAAACTTTCTTTTGCTTGACTCCATATCTTCCTCTTTATATAT
AGTCTCCAACATTCTTCTTTTAATATCTAGAGACAAGCACCAAATATTAGAAAAGCTACAAGTA
GAAGAACAGCAATAGATATCGTACCAACACGTCTCCGTGTTTCTTCTTGCCTCTTCTTCTCAAA
CATCATCGTGTCTGTAATCTCTTCCTGGAAATATGGCAATTAAAAGATGAGCACTATGAGAAAC
AACTGGGCATTAACTATATCCAAATCTAAAAGTGAATAGAGCTTAAATCGATGAAACCTTTTTC
CTGCGAATTTTTGCTGCTTCATCTTCTAATTGTCTCTGTTCCTTCAGAAGCTTCTTTAAGTCTT
CATCCATGCCGTCAATATCTTTGATATGCTTATCCTTCTGAGATCGAAGTCTTTCAGAGTCAAT
AACATCTAAATCTGCATAAAAAATCTGACAAGCATCAGGCACCACCAGATCAGAATGCACAACC
CAAGTAGCTGACAGGCATTAATGTTGAGATTGTAACACATACTGCACATAAAAAGACGGGAAGG
ATTGACGGCATCTACAAATGCTGACAAATGACCGCCATATCTTGACCTGGACCACCGATAGTGG
TTATCTGGGGTCCAAAAGTCAGAAATGCCTAGCTTTGGTACATCATCTGCTCTATTGTGTGTTT
CATCTGTACCTATATA
						
					

			
		

Sequences
Splice junction sequence	ACCTGGACCACCGATAGTGGTTATCTGGGGTCCAAAAGTCAGAAATGCCTAGCTTTGGTACATC ATCTGCTCTATTGTGTGTTTCATCTGTACCTATATActcaagaaacttttttgcaaggtcttcg gtgatcatagctattgactctgcatgctgttttgcattagacaactgctgcttatgctcttgag tttttctt
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	CTCAAGAAACTTTTTTGCAAGGTCTTCGGTGATCATAGCTATTGACTCTGCATGCTGTTTTGCA TTAGACAACTGCTGCTTATGCTCTTGAGTTTTTCTTTTACCTGATTAGAGGAACATATGTCATG TGATAGTGCCAGCATGAGACAAATGGAATCAATCACGAAAGTAATGTATTGCCAACTTGCCATA TGCTACACTACTCTCAATCATTACAGAAATGAAATTTCCTACAAAGGCCTTTATAAGCTTGCCA GGCACATTCAACCGCAGTTGACCATTTATAGTACCAGTCTCAAAACATAGTTGTCTTTATTCAA AACTCAAAAGCCCAAGAGAGCATCTGTTCAACTTTGTCAGTCAATACTTAACAGATTCTTAGAA CACCTCAGAAAATAAAAATACACTTTTTTATGTAGAGTAGTTGTTAACTTACGACATGTTAGAA TACCCATGACTTGCCTGGGACTAAAGTCTAACGTTGTAGAATATTAGATATATCCATTCAAAAA TCAGCAAGAACTCACATGGTTCTGATATAGCTATACTTCAAAAAAAAATCTACTCAGGAGATGC ATGATGGATTTTGAATAGTCTTCACCTCTACAAACCAAACAGACCTGAGGAATGAGCATGACAT GAAAGTGAGCATAAGATTTGTCAACCCAAAGGCAAAAACTCAAAGAAAAAATTGCCTTGGACCC TAAGCCACTTTCCAAAATATTTGCCAAACTGAGTGGTTAGAAACAACAAAAGAATGGATTGAAA CATCAACTCACAGTTTTCATATTCTTTAGCAGCTTCAATAGCATTCTTTTCAAGTTTCTTCACA TCCTTTTCCATCTCCCATATCTATCAGATGATTAATGAAGGACAGATGATTACATGTGCGAATT GTTTCGGTACAAGGAACGGGATAAGACATAAGCAAATATGGCAATTTTCTGGTGTAACATGTGC AAATTATGTGTGCTTTAGACCAAACTAGTATTTTAGTAATTTATATATCTTATTGCAAGCAGCC AAACATTTGTAAAACAGCTGTGATTAATTGGGTGATTAATTGCAAAGTTTCCAAGCGGAGATTA ATTGGGTCACTGCAAGGTAATCAAAATGCAAGAAATATGCACAGTTCAATTCAAGAAGTTTTGT GTTATGAAAGTAACTAGTTTCTCACAAAGCATACCTTTGTATCGAGCTCAATGGAAGCCATGTT CTTTTGTGTGCAACTCCATTTGAGAGCAACAGCTTCAATAAGTAAATCCTGAGAGAATTTAAAT AAAATTTATGCAAGCACAAATGTGATGATGATCTTCAAGATAAACAAAATATTGTATCATCGTC AGAAGCTCCAAGCTCTGTTAAGTGCTAACCTTGAGTTTTAGCACTAGTTCATATCGCTGATCAT TTAACTTTGCCGCCTGATCAACAAACTTTCTTTTGCTTGACTCCATATCTTCCTCTTTATATAT AGTCTCCAACATTCTTCTTTTAATATCTAGAGACAAGCACCAAATATTAGAAAAGCTACAAGTA GAAGAACAGCAATAGATATCGTACCAACACGTCTCCGTGTTTCTTCTTGCCTCTTCTTCTCAAA CATCATCGTGTCTGTAATCTCTTCCTGGAAATATGGCAATTAAAAGATGAGCACTATGAGAAAC AACTGGGCATTAACTATATCCAAATCTAAAAGTGAATAGAGCTTAAATCGATGAAACCTTTTTC CTGCGAATTTTTGCTGCTTCATCTTCTAATTGTCTCTGTTCCTTCAGAAGCTTCTTTAAGTCTT CATCCATGCCGTCAATATCTTTGATATGCTTATCCTTCTGAGATCGAAGTCTTTCAGAGTCAAT AACATCTAAATCTGCATAAAAAATCTGACAAGCATCAGGCACCACCAGATCAGAATGCACAACC CAAGTAGCTGACAGGCATTAATGTTGAGATTGTAACACATACTGCACATAAAAAGACGGGAAGG ATTGACGGCATCTACAAATGCTGACAAATGACCGCCATATCTTGACCTGGACCACCGATAGTGG TTATCTGGGGTCCAAAAGTCAGAAATGCCTAGCTTTGGTACATCATCTGCTCTATTGTGTGTTT CATCTGTACCTATATA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.110906853

Conservation Information
Conserved circRNAs	NA
PMCS	0.110906853

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							29736116-29734130(+)
29736045-29734071(+)
29736013-29734045(-)
						
						Potential amino acid sequence
						
							MPSFGTSSALLCVSSVPIYSRNFFARSSVIIAIDSACCFALDNCCLCS*(+)
MLTNDRHILTWTTDSGYLGSKSQKCLALVHHLLYCVFHLYLYTQETFLQGLR*(+)
MCNLDVIDSERLRSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKR
QEETRRRVDIKRRMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCT
QKNMASIELDTKIWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITED
LAKKFLEYIGTDETHNRADDVPKLGISDFWTPDNHYRWSRSRYGGHLSAFVDAVNPSRLFMCNL
DVIDSERLRSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKRQEET
RRRVDIKRRMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCTQKNM
ASIELDTKIWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITEDLAKK
FLEYIGTDETHNRADDVPKLGISDFWTPDNHYRWSRSRYGGHLSAFVDAVNPSRLFMCNLDVID
SERLRSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKRQEETRRRV
DIKRRMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCTQKNMASIE
LDTKIWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITEDLAKKFLEY
IGTDETHNRADDVPKLGISDFWTPDNHYRWSRSRYGGHLSAFVDAVNPSRLFMCNLDVIDSERL
RSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKRQEETRRRVDIKR
RMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCTQKNMASIELDTK
IWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITEDLAKKFLE(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	29736116-29734130(+) 29736045-29734071(+) 29736013-29734045(-)
Potential amino acid sequence	MPSFGTSSALLCVSSVPIYSRNFFARSSVIIAIDSACCFALDNCCLCS(+) MLTNDRHILTWTTDSGYLGSKSQKCLALVHHLLYCVFHLYLYTQETFLQGLR(+) MCNLDVIDSERLRSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKR QEETRRRVDIKRRMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCT QKNMASIELDTKIWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITED LAKKFLEYIGTDETHNRADDVPKLGISDFWTPDNHYRWSRSRYGGHLSAFVDAVNPSRLFMCNL DVIDSERLRSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKRQEET RRRVDIKRRMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCTQKNM ASIELDTKIWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITEDLAKK FLEYIGTDETHNRADDVPKLGISDFWTPDNHYRWSRSRYGGHLSAFVDAVNPSRLFMCNLDVID SERLRSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKRQEETRRRV DIKRRMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCTQKNMASIE LDTKIWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITEDLAKKFLEY IGTDETHNRADDVPKLGISDFWTPDNHYRWSRSRYGGHLSAFVDAVNPSRLFMCNLDVIDSERL RSQKDKHIKDIDGMDEDLKKLLKEQRQLEDEAAKIRRKKEEITDTMMFEKKRQEETRRRVDIKR RMLETIYKEEDMESSKRKFVDQAAKLNDQRYELVLKLKDLLIEAVALKWSCTQKNMASIELDTK IWEMEKDVKKLEKNAIEAAKEYENCKRKTQEHKQQLSNAKQHAESIAMITEDLAKKFLE(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os05g0596600_circ_g.3

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