Plant Circular RNA Database

Detail information of Os09g0505800_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os09g0505800_circ_g.2
					
						ID in PlantcircBase
						osa_circ_039740
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr9: 19572224-19574424  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os09g0505800						
					
						Parent gene annotation
						
							Similar to Uridine kinase-like protein. (Os09t0505800-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						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
						Os09t0505850-00:3
Os09t0505800-01:7
Os09t0505850-00:3

General Information
CircRNA Name	Os09g0505800_circ_g.2
ID in PlantcircBase	osa_circ_039740
Alias	NA
Organism	Oryza sativa
Position	chr9: 19572224-19574424 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os09g0505800
Parent gene annotation	Similar to Uridine kinase-like protein. (Os09t0505800-01)
Parent gene strand	+
Alternative splicing	NA
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	Os09t0505850-00:3 Os09t0505800-01:7 Os09t0505850-00:3

			
						 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  
						
							TAGTTATTATTCACTTTGCCATTGCAGCTTATATACCATAAACTGCCCATGGATATTGCTGAAC
GGCATGTTCTTCTTTTGGATCCAGTGCTTGGTACAGatgctgatattaggctagctcgacgaat
aaggcgtgatacagttgaaagaggtagagatgttagctcggtgcttgagcaggtacttcaactt
gttttatt

									
								

					

						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
						
							ATGCTGATATTAGGCTAGCTCGACGAATAAGGCGTGATACAGTTGAAAGAGGTAGAGATGTTAG
CTCGGTGCTTGAGCAGGTACTTCAACTTGTTTTATTTTGCGTTTTTATATTAATATTGTTCTTG
TGCTTTGTAAACAGATTTTTGTCTTTTTACCTTTCTGATTTCAATTTTTCTACATATATAATTT
GAAATTCTGTTGGCATCTGTAGTATGGCAGGTTTGTGAAGCCAGCATTTGATGATTTTGTTCTC
CCTTCGAAAAAATATGCCGACGTGATCATACCACGAGGAGGTGATAATCATGTGGCAATTGACC
TGATTGTTCAACATATTCGTACTAAGCTTGGTCAGCATGACTTGTGCAAAATCTATCCACATGT
TTATGTGGTTCAAACAACATTCCAGGTTAGATTATTTGCACTTATCTTTAAACTTTATGCTTTT
CTTTGCTAAATTTCATAATATTCTTCTACTTTTCATGGTGAATTCAACAGATCCGAGGAATGCA
TACTCTGATTCGTGACAGGGACATCACTACACCTGACTTTGTCTTTTATTCAGATCGGTTGATC
CGTTTGGTACTACTTTTGTATATATAGCTTTTATAACTTCTCTTTAACTTCATAATTTTTTTTT
AAAAGATCCAGATTTTGAATTGATTCAACTCATTTGCTATTGGTATGGAAATGCCATGTCAGGT
AGTTGAGCACGGACTGGGGCATTTGCCATTTACAGAAAAGCAGATTATTACTCCAACAGGTATT
TTCAAATGGTACCACATATTTTTGGTTTCATTCTTTTTCAGTTGTTTAACAGTGTTACAAATTA
TTCCTACAAAAGACTGAAAAGAGAGCGCACATAACCCATCCTGCCATCAAAACGGCTCCATCCC
ACTGTGATGCAGGGGGTGCACGGTTTCATTCTGGTTGCTAATGCTAATATTGTTTTATATCATA
AGTTCTGAACTGGTGTGAATCCACCTACGAAAAGGAGTTTTTTTAATTGTTCATAGTTGTAAGA
CAACTGATTCAAATTTGACTAGTGTGCTACATAACAATTCTCTAAAATCACCCAAAAATTTGTT
GAGAAAAAAATTTAGGATTGATGCTGCAGATGTGGCCTGCAGCTGGGACTCGTTGTTATGGAGA
ACCATTACTTAATTAATTCTGCTGCTGCAGACCTTTGGAATTAGCTACTTTCATATGCTTCTGA
AATTTTCCCTTCGACGTAGGAGTAGCAATTTATGGTTGGCTGCAAACAGGTTTTTAGGGGTCTG
ATTTAGTGCAAATAGAAAAACAGCATACCTAGAACTTCCCAACAAGTTTGCTACATGATACTCT
GCATGCCGTACCTCTATGCATTTAGTATTTGAAATTAGCTAGCTCTACAATGCTTTCCTTTTTC
AGAACATCAACTCATGCATGTATAATTTGTTTCTTCTGGGTCTAGGGTCCATTTATATGGGAGT
TGAATTTTGCAAGAAGCTCTGTGGAGTGTCTATTGTCCGAAGGTACGTTATGAAATGATGAAGT
AATTAGCAAACTAAAAATTCAAGCAGACAACATTGGCAGGTGCATTTTGAAGGATGGCTGCATA
CTGAATTGACTCTGTCCAACAGCAATTTTCTGGATCCTTGTGTTGAGATGCTACCTTAGAACTC
AAGATTATTTGTTATTAGTAGAATTTTACATTATACTTTGTTTTGTATTGGATTTTGGAACCTC
TTCCTTTATGTATGTTATGTGTTCTGTAACATTTTTTTCTAGGTCAGACTAGTGCATTTATCGA
TCTTCATGGTACCATGCATCATGTCCCAATTTTTAACTCCAAATTACTTTTTTCCTGTCATTCT
TCCGTAATGTCGTGAAATATTAGTATTACAGAAGATATTTCAACATCTTTTCATTAACATGTAT
CATTGTATTGCAGTGGTGAAAGTATGGAGAATGCATTGCGTGCTTGTTGTAAAGGAATAAAAAT
TGGCAAGATTCTAATACATCGTGTTGGAGACAATGGACAGCAAGTAAGTACATAGATTTTATGA
TTAATGATTATTGAAAAAGGATCCTCAGAATGACTTAGTTCATATAGTTTGAATAGTTATTATT
CACTTTGCCATTGCAGCTTATATACCATAAACTGCCCATGGATATTGCTGAACGGCATGTTCTT
CTTTTGGATCCAGTGCTTGGTACAG
						
					

			
		

Sequences
Splice junction sequence	TAGTTATTATTCACTTTGCCATTGCAGCTTATATACCATAAACTGCCCATGGATATTGCTGAAC GGCATGTTCTTCTTTTGGATCCAGTGCTTGGTACAGatgctgatattaggctagctcgacgaat aaggcgtgatacagttgaaagaggtagagatgttagctcggtgcttgagcaggtacttcaactt gttttatt
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	ATGCTGATATTAGGCTAGCTCGACGAATAAGGCGTGATACAGTTGAAAGAGGTAGAGATGTTAG CTCGGTGCTTGAGCAGGTACTTCAACTTGTTTTATTTTGCGTTTTTATATTAATATTGTTCTTG TGCTTTGTAAACAGATTTTTGTCTTTTTACCTTTCTGATTTCAATTTTTCTACATATATAATTT GAAATTCTGTTGGCATCTGTAGTATGGCAGGTTTGTGAAGCCAGCATTTGATGATTTTGTTCTC CCTTCGAAAAAATATGCCGACGTGATCATACCACGAGGAGGTGATAATCATGTGGCAATTGACC TGATTGTTCAACATATTCGTACTAAGCTTGGTCAGCATGACTTGTGCAAAATCTATCCACATGT TTATGTGGTTCAAACAACATTCCAGGTTAGATTATTTGCACTTATCTTTAAACTTTATGCTTTT CTTTGCTAAATTTCATAATATTCTTCTACTTTTCATGGTGAATTCAACAGATCCGAGGAATGCA TACTCTGATTCGTGACAGGGACATCACTACACCTGACTTTGTCTTTTATTCAGATCGGTTGATC CGTTTGGTACTACTTTTGTATATATAGCTTTTATAACTTCTCTTTAACTTCATAATTTTTTTTT AAAAGATCCAGATTTTGAATTGATTCAACTCATTTGCTATTGGTATGGAAATGCCATGTCAGGT AGTTGAGCACGGACTGGGGCATTTGCCATTTACAGAAAAGCAGATTATTACTCCAACAGGTATT TTCAAATGGTACCACATATTTTTGGTTTCATTCTTTTTCAGTTGTTTAACAGTGTTACAAATTA TTCCTACAAAAGACTGAAAAGAGAGCGCACATAACCCATCCTGCCATCAAAACGGCTCCATCCC ACTGTGATGCAGGGGGTGCACGGTTTCATTCTGGTTGCTAATGCTAATATTGTTTTATATCATA AGTTCTGAACTGGTGTGAATCCACCTACGAAAAGGAGTTTTTTTAATTGTTCATAGTTGTAAGA CAACTGATTCAAATTTGACTAGTGTGCTACATAACAATTCTCTAAAATCACCCAAAAATTTGTT GAGAAAAAAATTTAGGATTGATGCTGCAGATGTGGCCTGCAGCTGGGACTCGTTGTTATGGAGA ACCATTACTTAATTAATTCTGCTGCTGCAGACCTTTGGAATTAGCTACTTTCATATGCTTCTGA AATTTTCCCTTCGACGTAGGAGTAGCAATTTATGGTTGGCTGCAAACAGGTTTTTAGGGGTCTG ATTTAGTGCAAATAGAAAAACAGCATACCTAGAACTTCCCAACAAGTTTGCTACATGATACTCT GCATGCCGTACCTCTATGCATTTAGTATTTGAAATTAGCTAGCTCTACAATGCTTTCCTTTTTC AGAACATCAACTCATGCATGTATAATTTGTTTCTTCTGGGTCTAGGGTCCATTTATATGGGAGT TGAATTTTGCAAGAAGCTCTGTGGAGTGTCTATTGTCCGAAGGTACGTTATGAAATGATGAAGT AATTAGCAAACTAAAAATTCAAGCAGACAACATTGGCAGGTGCATTTTGAAGGATGGCTGCATA CTGAATTGACTCTGTCCAACAGCAATTTTCTGGATCCTTGTGTTGAGATGCTACCTTAGAACTC AAGATTATTTGTTATTAGTAGAATTTTACATTATACTTTGTTTTGTATTGGATTTTGGAACCTC TTCCTTTATGTATGTTATGTGTTCTGTAACATTTTTTTCTAGGTCAGACTAGTGCATTTATCGA TCTTCATGGTACCATGCATCATGTCCCAATTTTTAACTCCAAATTACTTTTTTCCTGTCATTCT TCCGTAATGTCGTGAAATATTAGTATTACAGAAGATATTTCAACATCTTTTCATTAACATGTAT CATTGTATTGCAGTGGTGAAAGTATGGAGAATGCATTGCGTGCTTGTTGTAAAGGAATAAAAAT TGGCAAGATTCTAATACATCGTGTTGGAGACAATGGACAGCAAGTAAGTACATAGATTTTATGA TTAATGATTATTGAAAAAGGATCCTCAGAATGACTTAGTTCATATAGTTTGAATAGTTATTATT CACTTTGCCATTGCAGCTTATATACCATAAACTGCCCATGGATATTGCTGAACGGCATGTTCTT CTTTTGGATCCAGTGCTTGGTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							osi_circ_018626 						
					
						PMCS
						0.158681626

Conservation Information
Conserved circRNAs	osi_circ_018626
PMCS	0.158681626

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							19574241-19572238(+)
19572732-19574421(+)
19572510-19573686(-)
						
						Potential amino acid sequence
						
							MDSNLYTINCPWILLNGMFFFWIQCLVQMLILG*(+)
MHTLIRDRDITTPDFVFYSDRLIRLVVEHGLGHLPFTEKQIITPTGSIYMGVEFCKKLCGVSIV
RSGESMENALRACCKGIKIGKILIHRVGDNGQQLIYHKLPMDIAERHVLLLDPVLGTDADIRLA
RRIRRDTVERGRDVSSVLEQYGRFVKPAFDDFVLPSKKYADVIIPRGGDNHVAIDLIVQHIRTK
LGQHDLCKIYPHVYVVQTTFQIRGMHTLIRDRDITTPDFVFYSDRLIRLVVEHGLGHLPFTEKQ
IITPTGSIYMGVEFCKKLCGVSIVRSGESMENALRACCKGIKIGKILIHRVGDNGQQLIYHKLP
MDIAERHVLLLDPVLGTDADIRLARRIRRDTVERGRDVSSVLEQYGRFVKPAFDDFVLPSKKYA
DVIIPRGGDNHVAIDLIVQHIRTKLGQHDLCKIYPHVYVVQTTFQIRGMHTLIRDRDITTPDFV
FYSDRLIRLVVEHGLGHLPFTEKQIITPTGSIYMGVEFCKKLCGVSIVRSGESMENALRACCKG
IKIGKILIHRVGDNGQQLIYHKLPMDIAERHVLLLDPVLGTDADIRLARRIRRDTVERGRDVSS
VLEQYGRFVKPAFDDFVLPSKKYADVIIPRGGDNHVAIDLIVQHIRTKLGQHDLCKIYPHVYVV
QTTFQIRGMHTLIRDRDITTPDFVFYSDRLIRLVVEHGLGHLPFTEKQIITPTGSIYMGVEFCK
KLCGVSIVRSGESMENALRACCKGIKIGKILIHRVGDNGQQLIYHKLPMDIAERHVLLLDPVLG
T(+)
MITSAYFFEGRTKSSNAGFTNLPYCSSTELTSLPLSTVSRLIRRASLISASVPSTGSKRRTCRS
AISMGSLWYISCCPLSPTRCIRILPIFIPLQQARNAFSILSPLRTIDTPQSFLQNSTPI*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	19574241-19572238(+) 19572732-19574421(+) 19572510-19573686(-)
Potential amino acid sequence	MDSNLYTINCPWILLNGMFFFWIQCLVQMLILG(+) MHTLIRDRDITTPDFVFYSDRLIRLVVEHGLGHLPFTEKQIITPTGSIYMGVEFCKKLCGVSIV RSGESMENALRACCKGIKIGKILIHRVGDNGQQLIYHKLPMDIAERHVLLLDPVLGTDADIRLA RRIRRDTVERGRDVSSVLEQYGRFVKPAFDDFVLPSKKYADVIIPRGGDNHVAIDLIVQHIRTK LGQHDLCKIYPHVYVVQTTFQIRGMHTLIRDRDITTPDFVFYSDRLIRLVVEHGLGHLPFTEKQ IITPTGSIYMGVEFCKKLCGVSIVRSGESMENALRACCKGIKIGKILIHRVGDNGQQLIYHKLP MDIAERHVLLLDPVLGTDADIRLARRIRRDTVERGRDVSSVLEQYGRFVKPAFDDFVLPSKKYA DVIIPRGGDNHVAIDLIVQHIRTKLGQHDLCKIYPHVYVVQTTFQIRGMHTLIRDRDITTPDFV FYSDRLIRLVVEHGLGHLPFTEKQIITPTGSIYMGVEFCKKLCGVSIVRSGESMENALRACCKG IKIGKILIHRVGDNGQQLIYHKLPMDIAERHVLLLDPVLGTDADIRLARRIRRDTVERGRDVSS VLEQYGRFVKPAFDDFVLPSKKYADVIIPRGGDNHVAIDLIVQHIRTKLGQHDLCKIYPHVYVV QTTFQIRGMHTLIRDRDITTPDFVFYSDRLIRLVVEHGLGHLPFTEKQIITPTGSIYMGVEFCK KLCGVSIVRSGESMENALRACCKGIKIGKILIHRVGDNGQQLIYHKLPMDIAERHVLLLDPVLG T(+) MITSAYFFEGRTKSSNAGFTNLPYCSSTELTSLPLSTVSRLIRRASLISASVPSTGSKRRTCRS AISMGSLWYISCCPLSPTRCIRILPIFIPLQQARNAFSILSPLRTIDTPQSFLQNSTPI(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os09g0505800_circ_g.2

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