Plant Circular RNA Database

Detail information of Chr1_circ_ig.68

			
						 General Information
					
						CircRNA Name
						Chr1_circ_ig.68
					
						ID in PlantcircBase
						csa_circ_000253
					
						Alias
						Chr1:7552911_7557441
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr1: 7552911-7557441  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							ag-circRNA							
									
						Identification method
						Find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Chr1_circ_ig.67 						
					
						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  
						
							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
						NA

General Information
CircRNA Name	Chr1_circ_ig.68
ID in PlantcircBase	csa_circ_000253
Alias	Chr1:7552911_7557441
Organism	Cucumis sativus
Position	chrChr1: 7552911-7557441 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	ag-circRNA
Identification method	Find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Chr1_circ_ig.67
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	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	NA

			
						 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  
						
							GAGATACACCTTATATGGAATCTCTACAAGAAAGAGAAAATCTTCAACAAAGGTTTCATCAGCA
TGATAACATCACTTTTTGTATTAGACGATATCAAAGgtgcagagcgtatttacaaggaatggga
gaccaggaaactgtcatacgacttgcggattccaaacttgttggttgatgcgtattgtagagct
ggtctaat

									
								

					

						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
						
							GTGCAGAGCGTATTTACAAGGAATGGGAGACCAGGAAACTGTCATACGACTTGCGGATTCCAAA
CTTGTTGGTTGATGCGTATTGTAGAGCTGGTCTAATGGAGAAAGCTGAAGTGCTTCTAAATGAG
ATGGTGATTGTAAGACGCAAGTTTTCGGTCGAGTCGTGGTGCTATTTAGCGAGTGGATATCTTC
AGAAAGATCAACTACCTCAGGCAGTTGAGACACTGAAGTTAGCAGCCAGTGTGTGTCCATCACG
ACTGAACTACGTCAAGGAAATTTTGGCAGCATTTTTGGATGGGAAGCAAGATGTGGAAGAAACT
GAGAAAGTGGTTAATTTGTTGAGGGAAAAAGATGACTCTCATCCTGCTCGTGCTCATGATTACA
TTGTTGGAGCGATTATGACCGAATCCGCCTAATTTAACTTTTATTCTAAAAGAACCCTTAAGTA
CTTAAGGGATATTTAGTAAGCAATGGTGATTATCAGTCGGTTAGGTTTTTTTATATAAAAAATT
GATCTACCATAGTTGGTTTAGTGAAGTCTCAAAACGTCCTTAACATCGATGAGTAAGGGTCGGT
CAGGTTGGTTTAACACTTAAAATATTTTTTGGAAATTCTCGATTTGAAACTTTTCAAAATCGAC
CCCTCTCATTTTTCGAACGATCGACTTAGGTTTGGTCAATTAGTTCTGTTTTTTTTTATATCAT
ATTCACTCAATTATCGTGTTTCTTAGGGAAAAAAATGAAAATGATAAAAGAATGAAAAGAGTAC
CTATGTGAATTTATTACCTACCGTTAAAAAAGTTGATAAAACAAAAAATTAATATTTTTTAGTT
GTAGGTTTCACCATTTTTTTAGACGAAAAGTGTAAAATTGACAATTCCACTCCCCTAACTCCTT
AGGCAAACGATCCCTACCCATATTTTTAGGTCAAATTGTAAATTTGAATTTTTCAACTCATTTG
GAACAAAATTTATAAGTAAACCACGCTTTTGTTTTTTTCGAGAAAAATTGTAATGTGTAACAAT
TTGAGTTTTGAGATTTGCGAGCTTGTTACACTCTTTTTCATTTTGCAAGGATGACAAGAATCAA
CTCTAACTCAAATGATACATGTGATATACATTTTATATACATTTATATCCATAAATGTTGACAA
AACAAAGGTTTTTAAGTTAATGACAATTGAGTAAAGATGTCAATACATTTTCAAAAATAAAACA
ATGTGACATTTTTGTAAATATGAGCTTCGTTAAAATTATACAATGGAATATGGGTCTTGTACAA
ATGACTTGATATTGAGCCTTTGACAACAGAATTACAACCAATAGATTTTTTATAGGGTAACTAT
AATGAACAACGACTTCAGATAGATTATGTTACAAATATTGGTATATCAGTCGTCCATAATACTC
TATCAGCAATAGAAGCTTATCATTAATAGATTTGGTTATATTTACATTTTTTTTTAAATGATGC
TATATATGTTAATATTTTGAATTTAATGGTTATATTTGGAATGAAACTTATCTTTTACTTTTGA
AAATAAGGCAAAATATTTGACATCTATTATAAATATCCTGAAATATGTGTAAGATAGATGTTCA
TGCGTGCTATGCCACAAAACCAAATGTCAATTTTTCATCCTTACCCGATATTAGTGTTTGTGTG
AAGTTACCTTCTAGTTGTCACTTTACCTATGAACAGAGACACTCAGCGAATCTCGAGAGAACAT
ATCGGTGAAAATTCAAAGAAATTTGAAAATAATGAAGAGTTTTGGATAAATTTATTTGTTTTAA
TATTATATTTTTTTTCAATATTTGTAATTCCATCGCCTCGTTTTTACAACAAAATTTGGATGTA
TCTTATTAGTATATAAATACTCATACTTAGATGTATATAAATCAACGTTATTGATTTATTCGAT
AATCTATAAGAAATTCTTCCATCATAAGAAAACTAAAATCTAAAATCTTTAAACATTGAATAAA
AATTCTTATAAAGAAATCATATCCAAAATTTTGAGAACAAAAAAATTTATTTTAGACAATAAAT
ATATTCGTTTTCAAAATATTCACAAAACTATAAAAAGACAATCGATACCGGAGATTCTCAATTA
AAAAAAGCAACAAACTCCAGATGTTATGAATTTATTTACATATTCTCGTGAGCACAATTCCGTT
CTTGAAAAAACATATCTTCGAGATTGAATTTTGAACTTATCACATTGTCCATTTCATGTTATAG
GCCAACTATAATAAACTGTTATATCAACAATATTTATCATCCATTTAGAATGGAAATACAATTT
TCTCGAAAAAATAATCAAACAATAATCACAAATTTCTACTAAAAGTAATTATAAAATAAATGTG
ATCTTTTTCATCGAAAGTTGCTGTGGTGTAGTGGTTATCACGTTAGTCTTACACACTAAAGGTC
CCCAGTTCGATCCTGGGCAGCAACATTTTAATTTTAGTTTTCCACCTAATGTTTTTCTTCACAT
CAGCTGAAGAGCTCACTGTCCTTCAATACTTGGGCATCGCCTAGTTTCTCCATTTTTTCTCCTC
TCTTTTGCCTTTCCAAATGAAGCTCTTACAATCTCTAAAACCAATTAATTTGATTGCATTCCGG
AGAGAATTCGTGAATTTCTACTCTACAGTTGTGAAGGATAGCCTTTACAGAAGGATTTCTCCGG
TGGGTGACCCTAATATCTCTGTAACTCCACTTCTTGATCAGTGGGTGTTAGAAAGCGGGCTTGT
TCAGCAAGACGAACTTCGGCATATCATCAAGGAGCTTAGGGTTTACAAGCGGTTCAAACATGCT
CTTGAGGTTTGATTTCTTATTCATATCTTCGTCGAAGTATGATGGTTTTCATTTGCTCTTATGT
GAAATGCTTTTGTTGATTGATGCAAATGGGTCCAATCGATTTGGCATTGTTGATTTTTTAAGAT
GAATAATGTGTTCATCTATGTTCCAGCATGGTTTCTTCTCCTATGAAATTGCTAAGCCGCCAGG
ATTTTTTATTTGCTTTGTTGAAATAGACAGTATGTGATAATTGGCGTGGAGTTGCATTGTTTCA
TGGATAAATGTCTTTTCGTAATTAACCAACTTCGAGAAGGGATATGGCTATTCAAATGGTGATG
AATAGTCTACACATATGTCTTTCTTCCCAAATTTTGTTCGCCGGTAAAACATTCTGCCTTTTGT
AAATTTTGTTGTTTGTTTATTTTCACAAAGTATCATCCATTGAATCTTGTGTACAATGTGCCGC
CTCCATAAAAAGGTAATTGGTTTTAACTTCGACACAAAAACTCATTAAACTTGGTATTAGAGTG
AGTAACATTGTTTCCAAGGTGAACCAAGTTTTATATCTCTTGTTTTTTGGTAATATTATTCGTA
TAACAGCTCTAACCAATGAAGTAATGAAATTAGTTCGTCAGGAGGCAACTCTAGATTCTTGAGG
GAGATGATTTTATTTTCTATTTCCTCGTAGATTACATATCATACTTGATTTGATCTCAAATTCA
TGTCTGATAACTATTTCTTGTCATTGATAGTTTGTCTTGCTGTTCTACCAATGCTTTGTTTATA
CTGTAGAGTTCACTTTCATGGAACTAGCTTGCTTTTCCTCCCAATTCTTAACTGGCAAGAATAA
CGAATACATTGGAGAGGATTTGCTTTCCATGTTCTTTCTGACATATCAAAGAAGCCACATTGTG
GAGAGTTCTTGGCTTATTGATTTCATATTAAATTGAACTGTTCATTGTGTTTTACCCAGTATTA
TTGTTTTGACCCATCTCTTCAAACCCCCTTTCATCTTCAGATATCAAAGTGGATGAGTGATAAA
AGATACTTTCCTTTATCGACTGCTGATATCGCAACACGGATGAATTTGATCTTAAGAGTTCATG
GATTGGAACAGGTGGAAGATTATTTCAATAACATGCCTAGTCAGTTGAAAAGGTGTCAAGTTCA
TATAGCTCTTCTTAACTGCTATGCGCATGAAAAGTATGCGGATAAAGCCAATGCCGTCCTGCAG
AAAATCAAGGAAATGGGTTTTGCTAAAACTTCTCTTCCATACAATATCACGATGAATCTTTATC
ATCAAATTGGAGAATTTGAGAGATTAGATTCTCCGTTGAAAGAGACGGATGTTGATCACGATCA
ATTCACATATACCACCCGACTAAGTGCATATGCTACTGCATTTGATTTTACGGGAATCGAAAAG
ATCATGGAACAAATGGAATGAAATACGAGTATTGTTCTAGATTGGAACTGTTATGTCATTGCTG
CAAATGCTTACAATAAGGTTGGCTTAATAGACAAATCCATTTCCATGCTGAAGAAATCAGAAGG
TCTCCTAGCAAATGTCAAAAAGAAAGGTTTTGCATTTAATGTCTACCTCAAACTATATGCCAGA
AATGGAAAGAAAGACGAGATACACCTTATATGGAATCTCTACAAGAAAGAGAAAATCTTCAACA
AAGGTTTCATCAGCATGATAACATCACTTTTTGTATTAGACGATATCAAAG
						
					

			
		

Sequences
Splice junction sequence	GAGATACACCTTATATGGAATCTCTACAAGAAAGAGAAAATCTTCAACAAAGGTTTCATCAGCA TGATAACATCACTTTTTGTATTAGACGATATCAAAGgtgcagagcgtatttacaaggaatggga gaccaggaaactgtcatacgacttgcggattccaaacttgttggttgatgcgtattgtagagct ggtctaat
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	GTGCAGAGCGTATTTACAAGGAATGGGAGACCAGGAAACTGTCATACGACTTGCGGATTCCAAA CTTGTTGGTTGATGCGTATTGTAGAGCTGGTCTAATGGAGAAAGCTGAAGTGCTTCTAAATGAG ATGGTGATTGTAAGACGCAAGTTTTCGGTCGAGTCGTGGTGCTATTTAGCGAGTGGATATCTTC AGAAAGATCAACTACCTCAGGCAGTTGAGACACTGAAGTTAGCAGCCAGTGTGTGTCCATCACG ACTGAACTACGTCAAGGAAATTTTGGCAGCATTTTTGGATGGGAAGCAAGATGTGGAAGAAACT GAGAAAGTGGTTAATTTGTTGAGGGAAAAAGATGACTCTCATCCTGCTCGTGCTCATGATTACA TTGTTGGAGCGATTATGACCGAATCCGCCTAATTTAACTTTTATTCTAAAAGAACCCTTAAGTA CTTAAGGGATATTTAGTAAGCAATGGTGATTATCAGTCGGTTAGGTTTTTTTATATAAAAAATT GATCTACCATAGTTGGTTTAGTGAAGTCTCAAAACGTCCTTAACATCGATGAGTAAGGGTCGGT CAGGTTGGTTTAACACTTAAAATATTTTTTGGAAATTCTCGATTTGAAACTTTTCAAAATCGAC CCCTCTCATTTTTCGAACGATCGACTTAGGTTTGGTCAATTAGTTCTGTTTTTTTTTATATCAT ATTCACTCAATTATCGTGTTTCTTAGGGAAAAAAATGAAAATGATAAAAGAATGAAAAGAGTAC CTATGTGAATTTATTACCTACCGTTAAAAAAGTTGATAAAACAAAAAATTAATATTTTTTAGTT GTAGGTTTCACCATTTTTTTAGACGAAAAGTGTAAAATTGACAATTCCACTCCCCTAACTCCTT AGGCAAACGATCCCTACCCATATTTTTAGGTCAAATTGTAAATTTGAATTTTTCAACTCATTTG GAACAAAATTTATAAGTAAACCACGCTTTTGTTTTTTTCGAGAAAAATTGTAATGTGTAACAAT TTGAGTTTTGAGATTTGCGAGCTTGTTACACTCTTTTTCATTTTGCAAGGATGACAAGAATCAA CTCTAACTCAAATGATACATGTGATATACATTTTATATACATTTATATCCATAAATGTTGACAA AACAAAGGTTTTTAAGTTAATGACAATTGAGTAAAGATGTCAATACATTTTCAAAAATAAAACA ATGTGACATTTTTGTAAATATGAGCTTCGTTAAAATTATACAATGGAATATGGGTCTTGTACAA ATGACTTGATATTGAGCCTTTGACAACAGAATTACAACCAATAGATTTTTTATAGGGTAACTAT AATGAACAACGACTTCAGATAGATTATGTTACAAATATTGGTATATCAGTCGTCCATAATACTC TATCAGCAATAGAAGCTTATCATTAATAGATTTGGTTATATTTACATTTTTTTTTAAATGATGC TATATATGTTAATATTTTGAATTTAATGGTTATATTTGGAATGAAACTTATCTTTTACTTTTGA AAATAAGGCAAAATATTTGACATCTATTATAAATATCCTGAAATATGTGTAAGATAGATGTTCA TGCGTGCTATGCCACAAAACCAAATGTCAATTTTTCATCCTTACCCGATATTAGTGTTTGTGTG AAGTTACCTTCTAGTTGTCACTTTACCTATGAACAGAGACACTCAGCGAATCTCGAGAGAACAT ATCGGTGAAAATTCAAAGAAATTTGAAAATAATGAAGAGTTTTGGATAAATTTATTTGTTTTAA TATTATATTTTTTTTCAATATTTGTAATTCCATCGCCTCGTTTTTACAACAAAATTTGGATGTA TCTTATTAGTATATAAATACTCATACTTAGATGTATATAAATCAACGTTATTGATTTATTCGAT AATCTATAAGAAATTCTTCCATCATAAGAAAACTAAAATCTAAAATCTTTAAACATTGAATAAA AATTCTTATAAAGAAATCATATCCAAAATTTTGAGAACAAAAAAATTTATTTTAGACAATAAAT ATATTCGTTTTCAAAATATTCACAAAACTATAAAAAGACAATCGATACCGGAGATTCTCAATTA AAAAAAGCAACAAACTCCAGATGTTATGAATTTATTTACATATTCTCGTGAGCACAATTCCGTT CTTGAAAAAACATATCTTCGAGATTGAATTTTGAACTTATCACATTGTCCATTTCATGTTATAG GCCAACTATAATAAACTGTTATATCAACAATATTTATCATCCATTTAGAATGGAAATACAATTT TCTCGAAAAAATAATCAAACAATAATCACAAATTTCTACTAAAAGTAATTATAAAATAAATGTG ATCTTTTTCATCGAAAGTTGCTGTGGTGTAGTGGTTATCACGTTAGTCTTACACACTAAAGGTC CCCAGTTCGATCCTGGGCAGCAACATTTTAATTTTAGTTTTCCACCTAATGTTTTTCTTCACAT CAGCTGAAGAGCTCACTGTCCTTCAATACTTGGGCATCGCCTAGTTTCTCCATTTTTTCTCCTC TCTTTTGCCTTTCCAAATGAAGCTCTTACAATCTCTAAAACCAATTAATTTGATTGCATTCCGG AGAGAATTCGTGAATTTCTACTCTACAGTTGTGAAGGATAGCCTTTACAGAAGGATTTCTCCGG TGGGTGACCCTAATATCTCTGTAACTCCACTTCTTGATCAGTGGGTGTTAGAAAGCGGGCTTGT TCAGCAAGACGAACTTCGGCATATCATCAAGGAGCTTAGGGTTTACAAGCGGTTCAAACATGCT CTTGAGGTTTGATTTCTTATTCATATCTTCGTCGAAGTATGATGGTTTTCATTTGCTCTTATGT GAAATGCTTTTGTTGATTGATGCAAATGGGTCCAATCGATTTGGCATTGTTGATTTTTTAAGAT GAATAATGTGTTCATCTATGTTCCAGCATGGTTTCTTCTCCTATGAAATTGCTAAGCCGCCAGG ATTTTTTATTTGCTTTGTTGAAATAGACAGTATGTGATAATTGGCGTGGAGTTGCATTGTTTCA TGGATAAATGTCTTTTCGTAATTAACCAACTTCGAGAAGGGATATGGCTATTCAAATGGTGATG AATAGTCTACACATATGTCTTTCTTCCCAAATTTTGTTCGCCGGTAAAACATTCTGCCTTTTGT AAATTTTGTTGTTTGTTTATTTTCACAAAGTATCATCCATTGAATCTTGTGTACAATGTGCCGC CTCCATAAAAAGGTAATTGGTTTTAACTTCGACACAAAAACTCATTAAACTTGGTATTAGAGTG AGTAACATTGTTTCCAAGGTGAACCAAGTTTTATATCTCTTGTTTTTTGGTAATATTATTCGTA TAACAGCTCTAACCAATGAAGTAATGAAATTAGTTCGTCAGGAGGCAACTCTAGATTCTTGAGG GAGATGATTTTATTTTCTATTTCCTCGTAGATTACATATCATACTTGATTTGATCTCAAATTCA TGTCTGATAACTATTTCTTGTCATTGATAGTTTGTCTTGCTGTTCTACCAATGCTTTGTTTATA CTGTAGAGTTCACTTTCATGGAACTAGCTTGCTTTTCCTCCCAATTCTTAACTGGCAAGAATAA CGAATACATTGGAGAGGATTTGCTTTCCATGTTCTTTCTGACATATCAAAGAAGCCACATTGTG GAGAGTTCTTGGCTTATTGATTTCATATTAAATTGAACTGTTCATTGTGTTTTACCCAGTATTA TTGTTTTGACCCATCTCTTCAAACCCCCTTTCATCTTCAGATATCAAAGTGGATGAGTGATAAA AGATACTTTCCTTTATCGACTGCTGATATCGCAACACGGATGAATTTGATCTTAAGAGTTCATG GATTGGAACAGGTGGAAGATTATTTCAATAACATGCCTAGTCAGTTGAAAAGGTGTCAAGTTCA TATAGCTCTTCTTAACTGCTATGCGCATGAAAAGTATGCGGATAAAGCCAATGCCGTCCTGCAG AAAATCAAGGAAATGGGTTTTGCTAAAACTTCTCTTCCATACAATATCACGATGAATCTTTATC ATCAAATTGGAGAATTTGAGAGATTAGATTCTCCGTTGAAAGAGACGGATGTTGATCACGATCA ATTCACATATACCACCCGACTAAGTGCATATGCTACTGCATTTGATTTTACGGGAATCGAAAAG ATCATGGAACAAATGGAATGAAATACGAGTATTGTTCTAGATTGGAACTGTTATGTCATTGCTG CAAATGCTTACAATAAGGTTGGCTTAATAGACAAATCCATTTCCATGCTGAAGAAATCAGAAGG TCTCCTAGCAAATGTCAAAAAGAAAGGTTTTGCATTTAATGTCTACCTCAAACTATATGCCAGA AATGGAAAGAAAGACGAGATACACCTTATATGGAATCTCTACAAGAAAGAGAAAATCTTCAACA AAGGTTTCATCAGCATGATAACATCACTTTTTGTATTAGACGATATCAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.100067345

Conservation Information
Conserved circRNAs	NA
PMCS	0.100067345

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						He et al., 2020

circRNA

Detail information of Chr1_circ_ig.68

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