Plant Circular RNA Database

Detail information of Os02g0690700_circ_g.2

			
						 General Information
					
						CircRNA Name
						Os02g0690700_circ_g.2
					
						ID in PlantcircBase
						osa_circ_016009
					
						Alias
						NA
					
						Organism
						
							Oryza sativa						
					
						Position
						
							chr2: 28356633-28358586  JBrowse»						
					
						Reference genome
						
							IRGSP-1.0.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							Os02g0690700						
					
						Parent gene annotation
						
							Clathrin coat associated protein AP-50 domain containing protein
. (Os02t0690700-01)
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Os02g0690700_circ_g.3 Os02g0690700_circ_g.4 Os02g0690700_circ_g.5 Os02g0690700_circ_g.6 Os02g0690700_circ_g.7 Os02g0690700_circ_g.8 						
					
						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
						Os02t0690700-01:6

General Information
CircRNA Name	Os02g0690700_circ_g.2
ID in PlantcircBase	osa_circ_016009
Alias	NA
Organism	Oryza sativa
Position	chr2: 28356633-28358586 JBrowse»
Reference genome	IRGSP-1.0.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	Os02g0690700
Parent gene annotation	Clathrin coat associated protein AP-50 domain containing protein . (Os02t0690700-01)
Parent gene strand	+
Alternative splicing	Os02g0690700_circ_g.3 Os02g0690700_circ_g.4 Os02g0690700_circ_g.5 Os02g0690700_circ_g.6 Os02g0690700_circ_g.7 Os02g0690700_circ_g.8
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	Os02t0690700-01:6

			
						 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  
						
							TGAAGTGCTTCCTTTCTGGAATGCCTGATCTGAAATTGGGATTAAATGACAAGATCGGGCTTGA
AAAAGAAGCTCAACTCAAGTCCAGGCCTGCAAAGAGgggaaatatggttgatgcattcaggatg
cacattatgcaaacaaaagaactgggtacatgccctgttcggcaaataggaggctgttcattcc
tttacatg

									
								

					

						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: 642
Transcript exons: 28356633-28356810,28357482-28357572,28357669-28357763,28
357886-28357975,28358296-28358344,28358448-28358586
GGGAAATATGGTTGATGCATTCAGGATGCACATTATGCAAACAAAAGAACTGGGTACATGCCCT
GTTCGGCAAATAGGAGGCTGTTCATTCCTTTACATGAGGATTAGTAATGTCTATATTGTGATCG
TGGTTAGCAGCAATGCTAATGTTGCTTGTGCTTTCAAGTTTGTCGTGGAGGCAGTGGCTCTTTT
CAAGTCATACTTTGGTGGTGCTTTTGATGAAGATGCTATCAGAAATAACTTTGTTTTAATCTAT
GAGCTTCTTGATGAAATTATGGACTTCGGTTACCCTCAAAACCTCTCACCTGAAATCTTAAAAT
TGTATATAACTCAAGAAGGAGTTCGGTCGCCATTTTCCTCCAAGCCTTCAGATAAGCCTGTTCC
GAATGCCACTCTACAAGTTACTGGTGCTGTTGGTTGGAGAAGAGAGGGTCTTATGTACAAGAAG
AACGAGGTTTTCTTGGACATTGTTGAAAGTGTAAATCTTCTTATGTCTTCTAAAGGGAGTGTTC
TACGATGTGATGTGACTGGGAAGATTCTTATGAAGTGCTTCCTTTCTGGAATGCCTGATCTGAA
ATTGGGATTAAATGACAAGATCGGGCTTGAAAAAGAAGCTCAACTCAAGTCCAGGCCTGCAAAG
AG
						
					

						Genomic sequence
						
							GGGAAATATGGTTGATGCATTCAGGATGCACATTATGCAAACAAAAGAACTGGGTACATGCCCT
GTTCGGCAAATAGGAGGCTGTTCATTCCTTTACATGAGGATTAGTAATGTCTATATTGTGATCG
TGGTTAGCAGCAATGCTAATGTTGCTTGTGCTTTCAAGTTTGTCGTGGAGGTATGCAATTTATA
TCATCTTTGAATAATTTGGAATAAAATAAATATAACATGCATACATATTACATCTCTATGATCT
AGATGAATATGAAGCTCAAGAAGTCAATTGTTGTTTTTTCCGCTAGAAATGGTATGTCTATGTT
AGTGTGTTGTAGCATAGATGGCTAGTCTAATTCCTCAATAAGTCCAGAGCAAAAGAATCTATTA
GTTACTAAAGAGGCATATGATTTTTCTGAAGTTACCTGTTTAATAATAATAATAATTTTAAATT
GCAATATGCCGTCGAAAAGTTTAGACAGTTTTACCATCTAATGATGGTATGTTTTGGGGGCAAC
TAGAATTTTCTATCGCTTAAGCGTAATTGCGTAAATGGTGATGATTTTTTGAGGAACCAAAAGT
TTTTTTTTTCCTTGAATGGCTACATGGTCGATGTTCCTTGTTAATCATTGCTGGAAAATACTCC
TTAAGCCCTGTTTCGATGCTTTCTATAATTTCTTAAGCCCTGTTTGATGAGGCTGACTGGGCGT
AGAATTAGTTTAACTAGTTGGTAGATGTGAGTCAATAATGAAGCTTCAGTTATAAATTCTAGAC
ATATATCCTTCTGATACCTGCATATCATCCTCTAGTGTTTTGAACGGTTTTTTATGTATGATTT
TTTTTGTAAATTACCAGGCAGTGGCTCTTTTCAAGTCATACTTTGGTGGTGCTTTTGATGAAGA
TGCTATCAGAAATAACTTTGTTTTAATCTATGAGCTTCTTGATGGTAAGGGACATCTTATTTTT
GGACTTTGTTTCATCAATTTGCACTGTGGATGCTTCTATTTACCTGTAGAACTGTCTCTCTCAT
CTAACTGTGCAGAAATTATGGACTTCGGTTACCCTCAAAACCTCTCACCTGAAATCTTAAAATT
GTATATAACTCAAGAAGGAGTTCGGTCGCCATTTTCCTCCAAGGTGAGAAAAATGTGACATTGA
AATAAGATAACCGGATAAAAAGTCACATCAAATAGTTTGTTGCTCATTTATTTTGTGTGAAAGC
ATCTGAATCATTTTTTTTTTGTTCTCTGCACTGATAGCCTTCAGATAAGCCTGTTCCGAATGCC
ACTCTACAAGTTACTGGTGCTGTTGGTTGGAGAAGAGAGGGTCTTATGTACAAGAAGAACGAGG
TGCCTGTTCCAAATGCCACCTCCAAGTTTCATCTGTATTTGGACATATTATGCATTGCTAGCTA
GCTAGCATTTCTAATAATCCCAGCTCAGCATAGATGCTAGTAATGTCAGAACGCTGCATGTATT
TCGACATGCAGAATAGTTTTCATACATATTGTCAATGTGCACTAGATTGCCTGTTACAGAAGTA
GTCCATACTTTATTTGTTGATTTCTTTGTTGCCATTTTGGTTCTGCATACTTTATTTCTTTTTA
GCACTTTGCATGACTCTTTTTAGCATTGAGATACACTAATATAGTATTCTTTTCTCTTGAAAGG
TTTTCTTGGACATTGTTGAAAGTGTAAATCTTCTTATGTCTTCTAAAGGTATTTCATGGATTAC
TATGATTTTATTGTACTGCTCTGATGTTTTTGTTGTCCTTAATGTTGCTTTGACTGATGTTTAA
TGTGGAAATTGCCTTCTCTGCAGGGAGTGTTCTACGATGTGATGTGACTGGGAAGATTCTTATG
AAGTGCTTCCTTTCTGGAATGCCTGATCTGAAATTGGGATTAAATGACAAGATCGGGCTTGAAA
AAGAAGCTCAACTCAAGTCCAGGCCTGCAAAGAG
						
					

			
		

Sequences
Splice junction sequence	TGAAGTGCTTCCTTTCTGGAATGCCTGATCTGAAATTGGGATTAAATGACAAGATCGGGCTTGA AAAAGAAGCTCAACTCAAGTCCAGGCCTGCAAAGAGgggaaatatggttgatgcattcaggatg cacattatgcaaacaaaagaactgggtacatgccctgttcggcaaataggaggctgttcattcc tttacatg
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: 642 Transcript exons: 28356633-28356810,28357482-28357572,28357669-28357763,28 357886-28357975,28358296-28358344,28358448-28358586 GGGAAATATGGTTGATGCATTCAGGATGCACATTATGCAAACAAAAGAACTGGGTACATGCCCT GTTCGGCAAATAGGAGGCTGTTCATTCCTTTACATGAGGATTAGTAATGTCTATATTGTGATCG TGGTTAGCAGCAATGCTAATGTTGCTTGTGCTTTCAAGTTTGTCGTGGAGGCAGTGGCTCTTTT CAAGTCATACTTTGGTGGTGCTTTTGATGAAGATGCTATCAGAAATAACTTTGTTTTAATCTAT GAGCTTCTTGATGAAATTATGGACTTCGGTTACCCTCAAAACCTCTCACCTGAAATCTTAAAAT TGTATATAACTCAAGAAGGAGTTCGGTCGCCATTTTCCTCCAAGCCTTCAGATAAGCCTGTTCC GAATGCCACTCTACAAGTTACTGGTGCTGTTGGTTGGAGAAGAGAGGGTCTTATGTACAAGAAG AACGAGGTTTTCTTGGACATTGTTGAAAGTGTAAATCTTCTTATGTCTTCTAAAGGGAGTGTTC TACGATGTGATGTGACTGGGAAGATTCTTATGAAGTGCTTCCTTTCTGGAATGCCTGATCTGAA ATTGGGATTAAATGACAAGATCGGGCTTGAAAAAGAAGCTCAACTCAAGTCCAGGCCTGCAAAG AG
Genomic sequence	GGGAAATATGGTTGATGCATTCAGGATGCACATTATGCAAACAAAAGAACTGGGTACATGCCCT GTTCGGCAAATAGGAGGCTGTTCATTCCTTTACATGAGGATTAGTAATGTCTATATTGTGATCG TGGTTAGCAGCAATGCTAATGTTGCTTGTGCTTTCAAGTTTGTCGTGGAGGTATGCAATTTATA TCATCTTTGAATAATTTGGAATAAAATAAATATAACATGCATACATATTACATCTCTATGATCT AGATGAATATGAAGCTCAAGAAGTCAATTGTTGTTTTTTCCGCTAGAAATGGTATGTCTATGTT AGTGTGTTGTAGCATAGATGGCTAGTCTAATTCCTCAATAAGTCCAGAGCAAAAGAATCTATTA GTTACTAAAGAGGCATATGATTTTTCTGAAGTTACCTGTTTAATAATAATAATAATTTTAAATT GCAATATGCCGTCGAAAAGTTTAGACAGTTTTACCATCTAATGATGGTATGTTTTGGGGGCAAC TAGAATTTTCTATCGCTTAAGCGTAATTGCGTAAATGGTGATGATTTTTTGAGGAACCAAAAGT TTTTTTTTTCCTTGAATGGCTACATGGTCGATGTTCCTTGTTAATCATTGCTGGAAAATACTCC TTAAGCCCTGTTTCGATGCTTTCTATAATTTCTTAAGCCCTGTTTGATGAGGCTGACTGGGCGT AGAATTAGTTTAACTAGTTGGTAGATGTGAGTCAATAATGAAGCTTCAGTTATAAATTCTAGAC ATATATCCTTCTGATACCTGCATATCATCCTCTAGTGTTTTGAACGGTTTTTTATGTATGATTT TTTTTGTAAATTACCAGGCAGTGGCTCTTTTCAAGTCATACTTTGGTGGTGCTTTTGATGAAGA TGCTATCAGAAATAACTTTGTTTTAATCTATGAGCTTCTTGATGGTAAGGGACATCTTATTTTT GGACTTTGTTTCATCAATTTGCACTGTGGATGCTTCTATTTACCTGTAGAACTGTCTCTCTCAT CTAACTGTGCAGAAATTATGGACTTCGGTTACCCTCAAAACCTCTCACCTGAAATCTTAAAATT GTATATAACTCAAGAAGGAGTTCGGTCGCCATTTTCCTCCAAGGTGAGAAAAATGTGACATTGA AATAAGATAACCGGATAAAAAGTCACATCAAATAGTTTGTTGCTCATTTATTTTGTGTGAAAGC ATCTGAATCATTTTTTTTTTGTTCTCTGCACTGATAGCCTTCAGATAAGCCTGTTCCGAATGCC ACTCTACAAGTTACTGGTGCTGTTGGTTGGAGAAGAGAGGGTCTTATGTACAAGAAGAACGAGG TGCCTGTTCCAAATGCCACCTCCAAGTTTCATCTGTATTTGGACATATTATGCATTGCTAGCTA GCTAGCATTTCTAATAATCCCAGCTCAGCATAGATGCTAGTAATGTCAGAACGCTGCATGTATT TCGACATGCAGAATAGTTTTCATACATATTGTCAATGTGCACTAGATTGCCTGTTACAGAAGTA GTCCATACTTTATTTGTTGATTTCTTTGTTGCCATTTTGGTTCTGCATACTTTATTTCTTTTTA GCACTTTGCATGACTCTTTTTAGCATTGAGATACACTAATATAGTATTCTTTTCTCTTGAAAGG TTTTCTTGGACATTGTTGAAAGTGTAAATCTTCTTATGTCTTCTAAAGGTATTTCATGGATTAC TATGATTTTATTGTACTGCTCTGATGTTTTTGTTGTCCTTAATGTTGCTTTGACTGATGTTTAA TGTGGAAATTGCCTTCTCTGCAGGGAGTGTTCTACGATGTGATGTGACTGGGAAGATTCTTATG AAGTGCTTCCTTTCTGGAATGCCTGATCTGAAATTGGGATTAAATGACAAGATCGGGCTTGAAA AAGAAGCTCAACTCAAGTCCAGGCCTGCAAAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.2730634

Conservation Information
Conserved circRNAs	NA
PMCS	0.2730634

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							28356641-28358583(+)
28358533-28356706(+)
						
						Potential amino acid sequence
						
							MVDAFRMHIMQTKELGTCPVRQIGGCSFLYMRISNVYIVIVVSSNANVACAFKFVVEAVALFKS
YFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQNLSPEILKLYITQEGVRSPFSSKPSDKPVPNA
TLQVTGAVGWRREGLMYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLG
LNDKIGLEKEAQLKSRPAKRGNMVDAFRMHIMQTKELGTCPVRQIGGCSFLYMRISNVYIVIVV
SSNANVACAFKFVVEAVALFKSYFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQNLSPEILKLY
ITQEGVRSPFSSKPSDKPVPNATLQVTGAVGWRREGLMYKKNEVFLDIVESVNLLMSSKGSVLR
CDVTGKILMKCFLSGMPDLKLGLNDKIGLEKEAQLKSRPAKRGNMVDAFRMHIMQTKELGTCPV
RQIGGCSFLYMRISNVYIVIVVSSNANVACAFKFVVEAVALFKSYFGGAFDEDAIRNNFVLIYE
LLDEIMDFGYPQNLSPEILKLYITQEGVRSPFSSKPSDKPVPNATLQVTGAVGWRREGLMYKKN
EVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKEAQLKSRPAKR
GNMVDAFRMHIMQTKELGTCPVRQIGGCSFLYMRISNVYIVIVVSSNANVACAFKFVVEAVALF
KSYFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQNLSPEILKLYITQEGVRSPFSSKPSDKPVP
NATLQVTGAVGWRREGLMYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLK
LGLNDKIGLEKEAQLKSRPAK(+)
MTRSGLKKKLNSSPGLQRGEIWLMHSGCTLCKQKNWVHALFGK*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	28356641-28358583(+) 28358533-28356706(+)
Potential amino acid sequence	MVDAFRMHIMQTKELGTCPVRQIGGCSFLYMRISNVYIVIVVSSNANVACAFKFVVEAVALFKS YFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQNLSPEILKLYITQEGVRSPFSSKPSDKPVPNA TLQVTGAVGWRREGLMYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLG LNDKIGLEKEAQLKSRPAKRGNMVDAFRMHIMQTKELGTCPVRQIGGCSFLYMRISNVYIVIVV SSNANVACAFKFVVEAVALFKSYFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQNLSPEILKLY ITQEGVRSPFSSKPSDKPVPNATLQVTGAVGWRREGLMYKKNEVFLDIVESVNLLMSSKGSVLR CDVTGKILMKCFLSGMPDLKLGLNDKIGLEKEAQLKSRPAKRGNMVDAFRMHIMQTKELGTCPV RQIGGCSFLYMRISNVYIVIVVSSNANVACAFKFVVEAVALFKSYFGGAFDEDAIRNNFVLIYE LLDEIMDFGYPQNLSPEILKLYITQEGVRSPFSSKPSDKPVPNATLQVTGAVGWRREGLMYKKN EVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLKLGLNDKIGLEKEAQLKSRPAKR GNMVDAFRMHIMQTKELGTCPVRQIGGCSFLYMRISNVYIVIVVSSNANVACAFKFVVEAVALF KSYFGGAFDEDAIRNNFVLIYELLDEIMDFGYPQNLSPEILKLYITQEGVRSPFSSKPSDKPVP NATLQVTGAVGWRREGLMYKKNEVFLDIVESVNLLMSSKGSVLRCDVTGKILMKCFLSGMPDLK LGLNDKIGLEKEAQLKSRPAK(+) MTRSGLKKKLNSSPGLQRGEIWLMHSGCTLCKQKNWVHALFGK*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of Os02g0690700_circ_g.2

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