Plant Circular RNA Database

Detail information of CSA018259_g_circ1

			
						 General Information
					
						CircRNA Name
						CSA018259_g_circ1
					
						ID in PlantcircBase
						csi_circ_000689
					
						Alias
						Cs-circRNA660
					
						Organism
						
							Camellia sinensis						
					
						Position
						
							chrSc0000524: 223344-223941  JBrowse»						
					
						Reference genome
						
							v1						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI2
					
						Parent gene
						
							CSA018259						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						bud
					
						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
						CSA018259.1:2

General Information
CircRNA Name	CSA018259_g_circ1
ID in PlantcircBase	csi_circ_000689
Alias	Cs-circRNA660
Organism	Camellia sinensis
Position	chrSc0000524: 223344-223941 JBrowse»
Reference genome	v1
Type	e-circRNA
Identification method	CIRCexplorer, CIRI2
Parent gene	CSA018259
Parent gene annotation	NA
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	bud
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	CSA018259.1:2

			
						 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  
						
							AAGTCAAAAAGTAATTGGGATTACTACGGGTTGCTTCTTTATAATTGCCAAAGTATGTGTCTTT
AGGAAGATGGTCATAATTCTTCTTGAACATTGACACagctcggtcaaattctaacatgaaacat
cttttgacatcctccttcgttggcttacagccgcaacgatcacgtcttgaagtcaaatcagaaa
atttgggg

						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
						
							AGCTCGGTCAAATTCTAACATGAAACATCTTTTGACATCCTCCTTCGTTGGCTTACAGCCGCAA
CGATCACGTCTTGAAGTCAAATCAGAAAATTTGGGGTATGTATAATGCAAAACGGCAGCCTCAT
CCAATTTGATCTCACTACAAAGATCACAGACGACAACACTTACAGCACTGATATAGCGCATATA
TAACACATTTAATGAATAAGATACACATATGTATGTACATTTAAGTATTAAATAGCTTTTGCTT
GCACCTTTGTCTTTTTTTGGAATTTGTATCTACATTTGAAAACACAGACATTCGCTTTTTAAAT
TATTTTTTAAAAAAAAAAGAAAGAAAGAAAAGGAGACAGACTTGTCTACATGCACGTGTAATTA
ATTTTAAATTCTGAAGAATAATGTACTTTGGTGTCTTCATATAATTGTGCCATCTATGTGCTCC
ATTAGGACGAAGATGATCTTCAATGCGGGCAGCTGATTTCCCATTTCCATAAGTCAAAAAGTAA
TTGGGATTACTACGGGTTGCTTCTTTATAATTGCCAAAGTATGTGTCTTTAGGAAGATGGTCAT
AATTCTTCTTGAACATTGACAC

Sequences
Splice junction sequence	AAGTCAAAAAGTAATTGGGATTACTACGGGTTGCTTCTTTATAATTGCCAAAGTATGTGTCTTT AGGAAGATGGTCATAATTCTTCTTGAACATTGACACagctcggtcaaattctaacatgaaacat cttttgacatcctccttcgttggcttacagccgcaacgatcacgtcttgaagtcaaatcagaaa atttgggg
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	AGCTCGGTCAAATTCTAACATGAAACATCTTTTGACATCCTCCTTCGTTGGCTTACAGCCGCAA CGATCACGTCTTGAAGTCAAATCAGAAAATTTGGGGTATGTATAATGCAAAACGGCAGCCTCAT CCAATTTGATCTCACTACAAAGATCACAGACGACAACACTTACAGCACTGATATAGCGCATATA TAACACATTTAATGAATAAGATACACATATGTATGTACATTTAAGTATTAAATAGCTTTTGCTT GCACCTTTGTCTTTTTTTGGAATTTGTATCTACATTTGAAAACACAGACATTCGCTTTTTAAAT TATTTTTTAAAAAAAAAAGAAAGAAAGAAAAGGAGACAGACTTGTCTACATGCACGTGTAATTA ATTTTAAATTCTGAAGAATAATGTACTTTGGTGTCTTCATATAATTGTGCCATCTATGTGCTCC ATTAGGACGAAGATGATCTTCAATGCGGGCAGCTGATTTCCCATTTCCATAAGTCAAAAAGTAA TTGGGATTACTACGGGTTGCTTCTTTATAATTGCCAAAGTATGTGTCTTTAGGAAGATGGTCAT AATTCTTCTTGAACATTGACAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							ath_circ_013390 						
					
						PMCS

Conservation Information
Conserved circRNAs	ath_circ_013390
PMCS

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							223937-223346(-)
						
						Potential amino acid sequence
						
							MFKKNYDHLPKDTYFGNYKEATRSNPNYFLTYGNGKSAARIEDHLRPNGAHRWHNYMKTPNEIK
LDEAAVLHYTYPKFSDLTSRRDRCGCKPTKEDVKRCFMLEFDRAVSMFKKNYDHLPKDTYFGNY
KEATRSNPNYFLTYGNGKSAARIEDHLRPNGAHRWHNYMKTPNEIKLDEAAVLHYTYPKFSDLT
SRRDRCGCKPTKEDVKRCFMLEFDRAVSMFKKNYDHLPKDTYFGNYKEATRSNPNYFLTYGNGK
SAARIEDHLRPNGAHRWHNYMKTPNEIKLDEAAVLHYTYPKFSDLTSRRDRCGCKPTKEDVKRC
FMLEFDRAVSMFKKNYDHLPKDTYFGNYKEATRSNPNYFLTYGNGKSAARIEDHLRPNGAHRWH
NYMKTPNEIKLDEAAVLHYTYPKFSDLTSRRDRCGCKPTKEDVKRCFMLEFDRA(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	223937-223346(-)
Potential amino acid sequence	MFKKNYDHLPKDTYFGNYKEATRSNPNYFLTYGNGKSAARIEDHLRPNGAHRWHNYMKTPNEIK LDEAAVLHYTYPKFSDLTSRRDRCGCKPTKEDVKRCFMLEFDRAVSMFKKNYDHLPKDTYFGNY KEATRSNPNYFLTYGNGKSAARIEDHLRPNGAHRWHNYMKTPNEIKLDEAAVLHYTYPKFSDLT SRRDRCGCKPTKEDVKRCFMLEFDRAVSMFKKNYDHLPKDTYFGNYKEATRSNPNYFLTYGNGK SAARIEDHLRPNGAHRWHNYMKTPNEIKLDEAAVLHYTYPKFSDLTSRRDRCGCKPTKEDVKRC FMLEFDRAVSMFKKNYDHLPKDTYFGNYKEATRSNPNYFLTYGNGKSAARIEDHLRPNGAHRWH NYMKTPNEIKLDEAAVLHYTYPKFSDLTSRRDRCGCKPTKEDVKRCFMLEFDRA(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Tong et al., 2018

circRNA

Detail information of CSA018259_g_circ1

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