Plant Circular RNA Database

Detail information of Chr1_circ_ig.12

			
						 General Information
					
						CircRNA Name
						Chr1_circ_ig.12
					
						ID in PlantcircBase
						csa_circ_000057
					
						Alias
						Chr1:1556275_1560720
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr1: 1556275-1560720  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.13 						
					
						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
						NA

General Information
CircRNA Name	Chr1_circ_ig.12
ID in PlantcircBase	csa_circ_000057
Alias	Chr1:1556275_1560720
Organism	Cucumis sativus
Position	chrChr1: 1556275-1560720 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.13
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	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  
						
							TGGCCGTCAGATCCAGAAAACTTTCAACAATATTAAGATCACCATATTGTGTGGATTCGTCACC
ATCCTTGTTCTTCGTGGTACAATCGGTATTGGCAACcttggtagctccgaggctgacgctgtga
accagaatattattgaagaaaccaaccggatccttgccgagattcgatctgacagcgaccccaa
cgacccgg

									
								

					

						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
						
							CTTGGTAGCTCCGAGGCTGACGCTGTGAACCAGAATATTATTGAAGAAACCAACCGGATCCTTG
CCGAGATTCGATCTGACAGCGACCCCAACGACCCGGATGATCCTGCTGAGACCCAAATCAACCC
CAATGTCACTTACACGCTCGGACCCAAGATTGTTAACTGGAATCAGGAACGAAAGGTTTGGCTC
GATCAAAACCCAGAATTTCCGAATTATGTCAATAAAAGAGCTAGGATCTTGCTTGTTACTGGTT
CTCCCCCAAAACCCTGTGACAACCCAATTGGGGATCATTATTTGTTGAAGGCAATCAAGAATAA
AATTGACTATTGCAGGCTTCATGGGATTGAGATTATATACAATATAGCTCATTTAGATAAGGAA
CTTGCTGGGTATTGGGCCAAGTTGCCGTTGATCCGACGATTGATGTTGTCCCACCCTGAGGTTG
AGTGGATTTGGTGGATGGATAGTGATGCGTTGTTTACTGATATGGTATTTGAGATTCCCCTGGA
AAAATATGATAACTATAATTTGGTTGTTCATGGTTACCCTGATTTGATGTTCAACCAAAAGTCC
TGGATTGCACTCAATACAGGAAGCTTTTTGTTTAGGAATTGTCAGTGGTCTTTGGATTTACTGG
ATGCTTGGGCTCCAATGGGACCAAAGGGTCCTATTCGAGAAGAGGCCGGGAAGATTTTGACTGC
AAACTTGAAGGGAAGGCCAGCATTTGAAGCTGATGATCAGTCAGCTTTGATATATTTATTGCTT
TCTCAGAAAGATCAATGGATGGATAAGGTGTTTCTTGAGAATTCATACTATTTGCATGGTTACT
GGGCTGGCTTAGTCGATAGGTATGAGGAAATGGTTGAGAAATATCACCCAGGGTTAGGCGACGA
AAGGTGGCCATTCGTGACGCATTTTGTCGGTTGCAAACCTTGTGGTAGCTATGGAGACTATCCA
GTAGAAAGGTGTTTGAGTAGCATGGAGAGGGCTTTCAATTTTGCTGACAACCAAGTTCTCAAAC
TGTATGGATTTCGCCATAGGGGCCTTTTAAGCCCCAAAATCAAGCGAATCAGGAATGAGACAGC
CACTCCATTGGAGTCAGTTGATCAAAACGATATTCGGCGGCACGTTCTGCATCAAACCAATGGA
CCTCCTACCAAATGAGCAAACCACATCCTTGTGTGATCTGTCTGTAGGTGTTGTTGTTATACGT
GAATTCATAGCAGATAAAGGCTGGTAATATTTCATACCCTTGTCCGTCTTGCTTCCTTTTCTTG
TCATTCTGATACTGCTTTTGAGAAAGATAGAGTGGAATTCTTTCATTAACTTTAAAAGAGATAG
TGTTTCAGTAATTGAGTATAGGTACTTTGTTTACTGCTCTTTTTGTTTTGATCTTCTTTTGAGG
AGTTGCTATGTATTTAGACTTTGCTCATATTGATATCAATGTTGTGCATTCAAATTTAGACCAT
AACTTTGATGAACTGCCAAAAGTTGGTCTCCATGTTTCAGTTTCGAAGGAAATAAGAGGGAGAA
CTCTTTGATCACATGGTTTGGATAATTCAAGTGCTAATGAAAACATTTCTGATCTTAGGTATCT
GCAATGTCTTGTTATATTTTGTGTGTGTTTTGCTGCCCTTTTTTTATACTCTTTGCAAAAAAGA
AAAAGTTGGTCTGCATATACTCTAGGAGTATCCAAGCACAACCAGCATAGAACAACCCCTCGAT
TATTCTTATCACAGTGGTTGCTTGGAAACTCCTTGGATTTTGATATTCTAAGCAAGCAGCCACT
GTGGCATCTGAACACAGTTTGTTTTTTTTACTTTCCATCCAGCAGTTTGGTTGTTTGAAAGTTT
TCAGGATTATATGCCATTGAGGATCTCACCTTGGAAAGATGAGGAGACCTCATGTCTTTGTTAA
TCCCCGTGTTTATCTAATATGATATGATATCAGAGTCCTAAAGTCCAAAAGAATATTTGATCCA
ACTCAAAAAGGTATATCTTGAGAAGATATGTTGAGGATCCCACTCCCAAAAGATAGAATTCTTA
ATTTTTATTTTTCAAGGCTAAAAATACTAACGTTTCTTTTAAAAGTTCAAGAATATTTGAAACA
AATATTAAAGATTTGTATTCATATACGGACAACAATAGTATTTTCAAAACATTTTGAATATTTG
GGACATTTTGTTTAATTTAGCCATAATTTTCTTAATAATAAAGTGTGTTTTCTTAACAATAGAG
TGTGTGTGACCTGTGAAGTAAGAAAATGAAAACTCACAACATTTATCTATCTTTTAACTCACCT
TCTAGTGATTTAATCTTTGCTAAAATCCTTCCAAACTTTTCATATTATATTTCCATTCCTTGCA
ACGAGACGTTTGATTAGTGATAAAAGTAATGAGTTGAGTTGAGTTAATAATAATTATGAGACAT
TTGATTAGTGATAAAAGTAATGAGTTGAGTTGAGTTAATAATAATTATAAGAAGTTAACGTAAA
TAGCGAGATAGTAAACCTCTTTAATTATTAATAAATCAAACAAGATGTTGATTTTTTCTTTACC
CACCCAACACAATTCTCCCAATTGTCAAACACCCTATAAAAGATATTATATGTATTTTCATATT
TGAAAAAAAGATATATGTACACATTACACATTATAAAATATTACATATTTTTAATAAAAAATAA
TTATAAACGGTTGAAAATAGTTACAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATATTGCTTCATTCTTGCCATAT
TTAAAAATATCAATTTTACATTTTACATTTTTTCTCTTCAAAATATTAAAACCATACCATCTTA
AAAATTTTATTTTTAAAATACAATTTTGTGTGAAGAAAAAAAAGAGAAGGAAATTGGAGGAAGT
TAAGTATAGATCTCACTTTTATTTCTTTATTTCTTAAAAATATTTTATTAAAGTAATATCAACT
TTAAAAAAAAATAAACAAAAAAGATAACAAGAAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
NNNNNNNNNNNNNNNNTATTTATAAATATAGTAAAATTTATAAATTTATAAATATTTAACAGCA
TCATTTAAAATATTTTTTCAAAAATTAATTCTCATACTAAATTTAGAATGATTTGTTTTTATCC
AACATTTCAAAATATAATAATAATAATAACATAAATATATTTTTAAAGTGTTTATATTTAGTTG
GTATTGTTATTGTAATGATAATAGATAGGTATATGAATAATAATTGAAGTATGTAATAACATTT
AGAAATTTTTTGTATAATTATTATATTTGCAAATGTTGGAAATATTTATTTCTGTTTATGGAAA
TTGGCATTAAAAAAATTCCCTAAATTAAAAGAAGAAATCTTAATAATTATTAGAAGAGAATGGA
TCCAATCAGAAATGAGAGAAATTCATTTTAGTTTTATTATTGCAAAGCATAAAAAACATCGAAT
CATTCAAAGGAATGGCGTTTGATCGATCCATAGACGGTCGGTGCTGTTTGCTGAGATAACTCTC
TTCTTCCTTCCTTAGCTGTTCCTCAACCATTACCCTCAATCAATTGACCTTTCGTTACCTATAA
CTATAACTCTATATCCATTACCATTACTCCTCTATTCTTCTCGCTCCACGATTCTTTGTTTTTC
TGTTTTTTTTTTTTTTTTTTCCATTTCTTTCTTCATCTCTTCGATTCCCGATCTTGCTGACATA
ATTGAATTGGTGGGGGTGGTGGAGAGAGCTGTTGGATAGAGGGAAACCCCATTTCCCTCATGAC
CCATTAGCTCCAAATCCTGCATTATCTCTGCTCAGAAGAGAGTTTTGTAGAAAGAGAAGGGAGA
AGAAACATGGGACTAGATAATATCTCTGCTCAGAAGAGAGCTGGTGGTGGAGGGAATAGTTTAC
CCACCACTGCTGCCACCGCCAACGCCAGGAGAAGTCGTGGGTTCCCTGGAATTCCCCGTGGCCG
TCAGATCCAGAAAACTTTCAACAATATTAAGATCACCATATTGTGTGGATTCGTCACCATCCTT
GTTCTTCGTGGTACAATCGGTATTGGCAAC
						
					

			
		

Sequences
Splice junction sequence	TGGCCGTCAGATCCAGAAAACTTTCAACAATATTAAGATCACCATATTGTGTGGATTCGTCACC ATCCTTGTTCTTCGTGGTACAATCGGTATTGGCAACcttggtagctccgaggctgacgctgtga accagaatattattgaagaaaccaaccggatccttgccgagattcgatctgacagcgaccccaa cgacccgg
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	CTTGGTAGCTCCGAGGCTGACGCTGTGAACCAGAATATTATTGAAGAAACCAACCGGATCCTTG CCGAGATTCGATCTGACAGCGACCCCAACGACCCGGATGATCCTGCTGAGACCCAAATCAACCC CAATGTCACTTACACGCTCGGACCCAAGATTGTTAACTGGAATCAGGAACGAAAGGTTTGGCTC GATCAAAACCCAGAATTTCCGAATTATGTCAATAAAAGAGCTAGGATCTTGCTTGTTACTGGTT CTCCCCCAAAACCCTGTGACAACCCAATTGGGGATCATTATTTGTTGAAGGCAATCAAGAATAA AATTGACTATTGCAGGCTTCATGGGATTGAGATTATATACAATATAGCTCATTTAGATAAGGAA CTTGCTGGGTATTGGGCCAAGTTGCCGTTGATCCGACGATTGATGTTGTCCCACCCTGAGGTTG AGTGGATTTGGTGGATGGATAGTGATGCGTTGTTTACTGATATGGTATTTGAGATTCCCCTGGA AAAATATGATAACTATAATTTGGTTGTTCATGGTTACCCTGATTTGATGTTCAACCAAAAGTCC TGGATTGCACTCAATACAGGAAGCTTTTTGTTTAGGAATTGTCAGTGGTCTTTGGATTTACTGG ATGCTTGGGCTCCAATGGGACCAAAGGGTCCTATTCGAGAAGAGGCCGGGAAGATTTTGACTGC AAACTTGAAGGGAAGGCCAGCATTTGAAGCTGATGATCAGTCAGCTTTGATATATTTATTGCTT TCTCAGAAAGATCAATGGATGGATAAGGTGTTTCTTGAGAATTCATACTATTTGCATGGTTACT GGGCTGGCTTAGTCGATAGGTATGAGGAAATGGTTGAGAAATATCACCCAGGGTTAGGCGACGA AAGGTGGCCATTCGTGACGCATTTTGTCGGTTGCAAACCTTGTGGTAGCTATGGAGACTATCCA GTAGAAAGGTGTTTGAGTAGCATGGAGAGGGCTTTCAATTTTGCTGACAACCAAGTTCTCAAAC TGTATGGATTTCGCCATAGGGGCCTTTTAAGCCCCAAAATCAAGCGAATCAGGAATGAGACAGC CACTCCATTGGAGTCAGTTGATCAAAACGATATTCGGCGGCACGTTCTGCATCAAACCAATGGA CCTCCTACCAAATGAGCAAACCACATCCTTGTGTGATCTGTCTGTAGGTGTTGTTGTTATACGT GAATTCATAGCAGATAAAGGCTGGTAATATTTCATACCCTTGTCCGTCTTGCTTCCTTTTCTTG TCATTCTGATACTGCTTTTGAGAAAGATAGAGTGGAATTCTTTCATTAACTTTAAAAGAGATAG TGTTTCAGTAATTGAGTATAGGTACTTTGTTTACTGCTCTTTTTGTTTTGATCTTCTTTTGAGG AGTTGCTATGTATTTAGACTTTGCTCATATTGATATCAATGTTGTGCATTCAAATTTAGACCAT AACTTTGATGAACTGCCAAAAGTTGGTCTCCATGTTTCAGTTTCGAAGGAAATAAGAGGGAGAA CTCTTTGATCACATGGTTTGGATAATTCAAGTGCTAATGAAAACATTTCTGATCTTAGGTATCT GCAATGTCTTGTTATATTTTGTGTGTGTTTTGCTGCCCTTTTTTTATACTCTTTGCAAAAAAGA AAAAGTTGGTCTGCATATACTCTAGGAGTATCCAAGCACAACCAGCATAGAACAACCCCTCGAT TATTCTTATCACAGTGGTTGCTTGGAAACTCCTTGGATTTTGATATTCTAAGCAAGCAGCCACT GTGGCATCTGAACACAGTTTGTTTTTTTTACTTTCCATCCAGCAGTTTGGTTGTTTGAAAGTTT TCAGGATTATATGCCATTGAGGATCTCACCTTGGAAAGATGAGGAGACCTCATGTCTTTGTTAA TCCCCGTGTTTATCTAATATGATATGATATCAGAGTCCTAAAGTCCAAAAGAATATTTGATCCA ACTCAAAAAGGTATATCTTGAGAAGATATGTTGAGGATCCCACTCCCAAAAGATAGAATTCTTA ATTTTTATTTTTCAAGGCTAAAAATACTAACGTTTCTTTTAAAAGTTCAAGAATATTTGAAACA AATATTAAAGATTTGTATTCATATACGGACAACAATAGTATTTTCAAAACATTTTGAATATTTG GGACATTTTGTTTAATTTAGCCATAATTTTCTTAATAATAAAGTGTGTTTTCTTAACAATAGAG TGTGTGTGACCTGTGAAGTAAGAAAATGAAAACTCACAACATTTATCTATCTTTTAACTCACCT TCTAGTGATTTAATCTTTGCTAAAATCCTTCCAAACTTTTCATATTATATTTCCATTCCTTGCA ACGAGACGTTTGATTAGTGATAAAAGTAATGAGTTGAGTTGAGTTAATAATAATTATGAGACAT TTGATTAGTGATAAAAGTAATGAGTTGAGTTGAGTTAATAATAATTATAAGAAGTTAACGTAAA TAGCGAGATAGTAAACCTCTTTAATTATTAATAAATCAAACAAGATGTTGATTTTTTCTTTACC CACCCAACACAATTCTCCCAATTGTCAAACACCCTATAAAAGATATTATATGTATTTTCATATT TGAAAAAAAGATATATGTACACATTACACATTATAAAATATTACATATTTTTAATAAAAAATAA TTATAAACGGTTGAAAATAGTTACAANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNATATTGCTTCATTCTTGCCATAT TTAAAAATATCAATTTTACATTTTACATTTTTTCTCTTCAAAATATTAAAACCATACCATCTTA AAAATTTTATTTTTAAAATACAATTTTGTGTGAAGAAAAAAAAGAGAAGGAAATTGGAGGAAGT TAAGTATAGATCTCACTTTTATTTCTTTATTTCTTAAAAATATTTTATTAAAGTAATATCAACT TTAAAAAAAAATAAACAAAAAAGATAACAAGAAAANNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN NNNNNNNNNNNNNNNNTATTTATAAATATAGTAAAATTTATAAATTTATAAATATTTAACAGCA TCATTTAAAATATTTTTTCAAAAATTAATTCTCATACTAAATTTAGAATGATTTGTTTTTATCC AACATTTCAAAATATAATAATAATAATAACATAAATATATTTTTAAAGTGTTTATATTTAGTTG GTATTGTTATTGTAATGATAATAGATAGGTATATGAATAATAATTGAAGTATGTAATAACATTT AGAAATTTTTTGTATAATTATTATATTTGCAAATGTTGGAAATATTTATTTCTGTTTATGGAAA TTGGCATTAAAAAAATTCCCTAAATTAAAAGAAGAAATCTTAATAATTATTAGAAGAGAATGGA TCCAATCAGAAATGAGAGAAATTCATTTTAGTTTTATTATTGCAAAGCATAAAAAACATCGAAT CATTCAAAGGAATGGCGTTTGATCGATCCATAGACGGTCGGTGCTGTTTGCTGAGATAACTCTC TTCTTCCTTCCTTAGCTGTTCCTCAACCATTACCCTCAATCAATTGACCTTTCGTTACCTATAA CTATAACTCTATATCCATTACCATTACTCCTCTATTCTTCTCGCTCCACGATTCTTTGTTTTTC TGTTTTTTTTTTTTTTTTTTCCATTTCTTTCTTCATCTCTTCGATTCCCGATCTTGCTGACATA ATTGAATTGGTGGGGGTGGTGGAGAGAGCTGTTGGATAGAGGGAAACCCCATTTCCCTCATGAC CCATTAGCTCCAAATCCTGCATTATCTCTGCTCAGAAGAGAGTTTTGTAGAAAGAGAAGGGAGA AGAAACATGGGACTAGATAATATCTCTGCTCAGAAGAGAGCTGGTGGTGGAGGGAATAGTTTAC CCACCACTGCTGCCACCGCCAACGCCAGGAGAAGTCGTGGGTTCCCTGGAATTCCCCGTGGCCG TCAGATCCAGAAAACTTTCAACAATATTAAGATCACCATATTGTGTGGATTCGTCACCATCCTT GTTCTTCGTGGTACAATCGGTATTGGCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.896262459

Conservation Information
Conserved circRNAs	NA
PMCS	0.896262459

			
						 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.12

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