Plant Circular RNA Database

Detail information of CSA018609_g_circ1

			
						 General Information
					
						CircRNA Name
						CSA018609_g_circ1
					
						ID in PlantcircBase
						csi_circ_000818
					
						Alias
						Cs-circRNA2218
					
						Organism
						
							Camellia sinensis						
					
						Position
						
							chrSc0000697: 162314-163488  JBrowse»						
					
						Reference genome
						
							v1						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI2
					
						Parent gene
						
							CSA018609						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							CSA018609_g_circ2 CSA018609_g_circ3 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						Exon boundary  
						
							NA-NA							"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
						CSA018609.1:2

General Information
CircRNA Name	CSA018609_g_circ1
ID in PlantcircBase	csi_circ_000818
Alias	Cs-circRNA2218
Organism	Camellia sinensis
Position	chrSc0000697: 162314-163488 JBrowse»
Reference genome	v1
Type	e-circRNA
Identification method	CIRCexplorer, CIRI2
Parent gene	CSA018609
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	CSA018609_g_circ2 CSA018609_g_circ3
Support reads	NA
Tissues	leaf
Exon boundary	NA-NA "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	CSA018609.1:2

			
						 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  
						
							TTCCTTTTCAATCAAATCTGCCATGGCCTTTATATATCCTTCACGCTGGTACCAAGAAGGAATT
ACTGTGTGCTGCATGTTTACTAGATATTCATCCTCCctgataagcaagcgtatatgcattagtt
atccctctcttttctagttcttccataatcaaatccacgcattcctccatctcagccttgtatg
gatcacca

						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
						
							CTGATAAGCAAGCGTATATGCATTAGTTATCCCTCTCTTTTCTAGTTCTTCCATAATCAAATCC
ACGCATTCCTCCATCTCAGCCTTGTATGGATCACCAGCCTCTTCCACATAAGCAAGTGGCACCC
CATGAGCACTGAAAAATATCATCACCTGTAATTCGTATTTTGAAATAAGATTGTTGGCAACTAA
CCACCAAATTGAATGATGCCACAAGATAAATGTTGAAGCTATCAACTTCAAGACAAATAAAAGC
TTCTAAGGGGGTACGAGAAATAGAAATGATTCATAAAACCATTGTCATCGAAAGTGCCCAAAGG
CACAACACTCAACAACTCATTCCCCATCCTCAATTATATCAGAAAGTTTATATGAATGCAGATT
CATCATAAACATAAGGACCTTAATTTACTTGTGCATAGAATATATGAGATCTAACACCTTGGCC
AGACCTTGACCTTATATGACATGAAAACACTATGGAAAAGGAGACACTTGCTGAATTCTATAGA
AATATTAAAATTCAAACCTTGTCACAAAGTATATGCCACGTTGAAGCAAAATTATCATGCTTCA
AAAGTAATAGGCAGTCTCCATTCCTCTCTCAGTCTCTCCTCCTAATATCCTCTCACCAACCTAT
TGTTGGTGGCCACATGTCTACCATACTTCCCAAAAGGCTTCCACAACCAGCCTACTCACCTCCA
ACCTTCCATGGAGAGAATGAAAAATCACTACCAGCCCACTTCTTTGGTTTAAATAAATAAAAAA
TGATTGATTATTTATAATTTTCAAATAAATAGCTATAAGTTTTTCAACTTCTTTTTTTTTTTCA
TTTTATAAAATCAATGAAAAGTTGAATATAGTGTTTTAAGCACGTTAAAATGCATCCATGACTG
TCCATAAAGGAGCCGCATGCTTGAAATGATATAACCATGTAGTACAACACTCAACCATATAAGC
TTGTGATGTGTAGACAATATTTGAAGTACAAGACATTCACAAAATAATTGAACTAAACGAGATG
ATTCAGCTGCAAGAAATGTCATACCTTATCAGGGTTGCCAAAATTTCTTAATTCCTTTTCAATC
AAATCTGCCATGGCCTTTATATATCCTTCACGCTGGTACCAAGAAGGAATTACTGTGTGCTGCA
TGTTTACTAGATATTCATCCTCC

Sequences
Splice junction sequence	TTCCTTTTCAATCAAATCTGCCATGGCCTTTATATATCCTTCACGCTGGTACCAAGAAGGAATT ACTGTGTGCTGCATGTTTACTAGATATTCATCCTCCctgataagcaagcgtatatgcattagtt atccctctcttttctagttcttccataatcaaatccacgcattcctccatctcagccttgtatg gatcacca
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	CTGATAAGCAAGCGTATATGCATTAGTTATCCCTCTCTTTTCTAGTTCTTCCATAATCAAATCC ACGCATTCCTCCATCTCAGCCTTGTATGGATCACCAGCCTCTTCCACATAAGCAAGTGGCACCC CATGAGCACTGAAAAATATCATCACCTGTAATTCGTATTTTGAAATAAGATTGTTGGCAACTAA CCACCAAATTGAATGATGCCACAAGATAAATGTTGAAGCTATCAACTTCAAGACAAATAAAAGC TTCTAAGGGGGTACGAGAAATAGAAATGATTCATAAAACCATTGTCATCGAAAGTGCCCAAAGG CACAACACTCAACAACTCATTCCCCATCCTCAATTATATCAGAAAGTTTATATGAATGCAGATT CATCATAAACATAAGGACCTTAATTTACTTGTGCATAGAATATATGAGATCTAACACCTTGGCC AGACCTTGACCTTATATGACATGAAAACACTATGGAAAAGGAGACACTTGCTGAATTCTATAGA AATATTAAAATTCAAACCTTGTCACAAAGTATATGCCACGTTGAAGCAAAATTATCATGCTTCA AAAGTAATAGGCAGTCTCCATTCCTCTCTCAGTCTCTCCTCCTAATATCCTCTCACCAACCTAT TGTTGGTGGCCACATGTCTACCATACTTCCCAAAAGGCTTCCACAACCAGCCTACTCACCTCCA ACCTTCCATGGAGAGAATGAAAAATCACTACCAGCCCACTTCTTTGGTTTAAATAAATAAAAAA TGATTGATTATTTATAATTTTCAAATAAATAGCTATAAGTTTTTCAACTTCTTTTTTTTTTTCA TTTTATAAAATCAATGAAAAGTTGAATATAGTGTTTTAAGCACGTTAAAATGCATCCATGACTG TCCATAAAGGAGCCGCATGCTTGAAATGATATAACCATGTAGTACAACACTCAACCATATAAGC TTGTGATGTGTAGACAATATTTGAAGTACAAGACATTCACAAAATAATTGAACTAAACGAGATG ATTCAGCTGCAAGAAATGTCATACCTTATCAGGGTTGCCAAAATTTCTTAATTCCTTTTCAATC AAATCTGCCATGGCCTTTATATATCCTTCACGCTGGTACCAAGAAGGAATTACTGTGTGCTGCA TGTTTACTAGATATTCATCCTCC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS

Conservation Information
Conserved circRNAs	NA
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							163468-163482(-)
162338-163482(-)
163412-162355(+)
						
						Potential amino acid sequence
						
							MQHTVIPSWYQREGYIKAMADLIEKELRNFGNPDKVMIFFSAHGVPLAYVEEAGDPYKAEMEEC
VDLIMEELEKRGITNAYTLAYQGG*(-)
MHIRLLIREDEYLVNMQHTVIPSWYQREGYIKAMADLIEKELRNFGNPDKVMIFFSAHGVPLAY
VEEAGDPYKAEMEECVDLIMEELEKRGITNAYTLAYQGG*(-)
MAFIYPSRWYQEGITVCCMFTRYSSSLISKRICISYPSLF*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	163468-163482(-) 162338-163482(-) 163412-162355(+)
Potential amino acid sequence	MQHTVIPSWYQREGYIKAMADLIEKELRNFGNPDKVMIFFSAHGVPLAYVEEAGDPYKAEMEEC VDLIMEELEKRGITNAYTLAYQGG(-) MHIRLLIREDEYLVNMQHTVIPSWYQREGYIKAMADLIEKELRNFGNPDKVMIFFSAHGVPLAY VEEAGDPYKAEMEECVDLIMEELEKRGITNAYTLAYQGG(-) MAFIYPSRWYQEGITVCCMFTRYSSSLISKRICISYPSLF*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tong et al., 2018

circRNA

Detail information of CSA018609_g_circ1

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