Plant Circular RNA Database

Detail information of Chr1_circ_ig.132

			
						 General Information
					
						CircRNA Name
						Chr1_circ_ig.132
					
						ID in PlantcircBase
						csa_circ_000625
					
						Alias
						Chr1:24947844_24951815
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr1: 24947844-24951815  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							igg-circRNA							
									
						Identification method
						Find_circ
					
						Parent gene
						
							NA						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						NA
					
						Alternative splicing
						
							Csa1G629160_circ_g.1 Csa1G629160_circ_g.2 Chr1_circ_ig.133 Csa1G629170_circ_g.1 Csa1G629170_circ_g.2 						
					
						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.132
ID in PlantcircBase	csa_circ_000625
Alias	Chr1:24947844_24951815
Organism	Cucumis sativus
Position	chrChr1: 24947844-24951815 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	igg-circRNA
Identification method	Find_circ
Parent gene	NA
Parent gene annotation	NA
Parent gene strand	NA
Alternative splicing	Csa1G629160_circ_g.1 Csa1G629160_circ_g.2 Chr1_circ_ig.133 Csa1G629170_circ_g.1 Csa1G629170_circ_g.2
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  
						
							TTATTCTTATGTTGTATTTGTAGCCATGGTTTCACAAGTATCAACATCTAATAGTTCCACGGCA
ATAGGCTTTGATGAGAGAATGTTGCTGCATTCAGAAtggttattgtcatctcgatggtattcac
tgctgatcatttttcatccaacccctgaaaacaagacaaaatggtttcagaagctcttcaaaag
agggtgaa

									
								

					

						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
						
							TGGTTATTGTCATCTCGATGGTATTCACTGCTGATCATTTTTCATCCAACCCCTGAAAACAAGA
CAAAATGGTTTCAGAAGCTCTTCAAAAGAGGGTGAATGGAGAGGCTGAAGTAAATCTTCAGAAG
CAAGGCGAGCAACACCCACGTCATAGTTTAAATGGAAGATGTGGAAAATCAGGCTCTGAAAGAA
AGAGTGTTAGATCTTGTCCAGATGATAGTTGTCGAGAAGATAATACAGGTGTAGCTTCTTATAA
AGATGTACCAAGCAGTGTAGATATAGATATGCAACCTGATTCTTTACGTGTAAGTGAAAACATT
GTTTAGTAGTAAGTGCGTTTAAAGTTGTCATGCAATGTTATTGTGTCTTTTGACTGCACTGTGA
GTAAATACAATACTGTTTTACTTCAGAAGAAGACAAGAAAACAGAGAGAAATAAGCTTCCAAGA
TATGGGTAACAACGTCGACATATTTGATGATGGTGATGATGACGATGACGACGATAGTGACTGG
GAACCGTTACAGAAACTCAGGGAAATAGTGAAGTGGTTCTGCACCAATTGTACCATGGCCAACC
TTGATGTTGCTGTACACTGTGACGTCTGTTTGTGCTCCTTTTCAACATAATTTTTCTCTCTTCT
GTTATGTTTTGTTTTTTCTTTAACCTTTGGTTTCAGGATGCGATTCGCATTTTTGAATGTATAT
TTTCCCTTACAGTCATGTGGCGAACATAAAGAATCTGCAATTCTCAAGCATGGGTTTTTTGCTC
CTTCATTTGTACAAGATTCAAATTTTTTAAAGACTGAGCTTGAAATGAAAAGAACTGATAAAGG
TGAGTCACTTGTTGCAAATACACGTGTTGTGTATTTTAATTTTAATCCATTAAAGCTTCTTCTT
GTCTTTGTATTCTTCATTCTTGTACTTTTAGTCTTATTTGCTTGGTAAATGGGTGGCCCTATTT
CATGTCATATTGTATTATTTATTATTATTTTTTAATTTAAGACAGCTGACCATTGGTTTCCTTG
AAATATTCCTAGATATGTTATTGTTAAGTATGTATAGTGAACTTATACTATTTTGAATTTAATT
GGATGTTAATATTTGACCATGTATGCTGTTTCTTTTCTCCTCTCCTTGTTTGATACATGCCCAT
TTTTTTTAATTAGCTTTTCTATAAATTCTTGTACGTAGTTACTAGTTCTTTTTTGAATATTTCT
CTCCCCTCTTGCTAAACACTAACTCTAAACTCCAGCCTCTGATGCAGCCATCACCATCTGCTGC
CATAGTCTTCGTTGTCAACGGTCATTGCCATCACTGTGAACCTTTGTGGGTTCTTCGTTCTGTC
TTTTGTGTCTCTAGCATTGGCTTTTCGATGTCTTTGAATTAAAAATATCCTGTCTTTCCGTTGC
CATCTGCCATTGTTTCTATCATCATATTCTGTCACCATTGTCATTATCATTGTCCTTGTTGTCG
TTTCACTGTCGTTGTGGGTTTTCAACGCTTTTTGGGTTTTCTTTTCTCCTAGCCGTCTACTCCT
ATTATTGGCAGTTGTTCTCCTTTGCCATCCTCCATCGTGCCAGATTCTTTTCTTCCTTTAGTTT
AACTTGTTGGTTGAGAAGGGAAACATTGTCATGCCAAGCACGGTGGTAGCAGAATTAGAGAGAA
TCATGTGCAATTTTTTCTGGGAAGGGCAAAAAGGCAGCAAAATAATTCACTTGGTAAATTGGAA
ACCTTGCTCACAAACTATGGAGACTGGGTGTCTTGGTGTGGGAAACCTGAAAAACAGAAACTTG
GCTCTTCTATTTAAATGGAATTGGAGATTTTTAAAGGATCCAAATGCATTTTGGTGCAAAATAG
CGAGAAGCATCCATGGATCTAACTCCTCCCAATGGCACTCTTCTGGAAAATCTGGTCTAAGTCT
TCGCAGCCCCGGGATTAGTATATAAAAAATTTGGTGTTCATTGAACCATCATGTATCTTTCAAG
CTAGGTGATGGCCAAAAATCACATTCTGGAAGGATCCTTGGTGCTTAGCAGTTAGCCCAATCCT
TCAGTCATGCTTTCCCCAATCTCTTCCGAATTGCAGCCAATCCCGTGGCCAAGGTTATTGCAAA
TTGGGACTCTTCAACATCTTTATGGAGCCCCTCTTTTCGCTGAGCACTAAAAGATGAGGAAATT
GAAGAATTTCAGCTTCTAATCGGTGGTCTACAAGGTAAAGCCATTTCCTTAGCCTTAGATTCAA
GAGCGTGGTCCTTGGATTCTTCAGAAACTTTCTTGGTAAAATCTTTTAAGTTCTTAACTGCCTC
TTCACAGATTGATAAATGAATTCAGCAAGCTCTATGAAAATCTAAGAGCCCAAAGAGACTAAAC
ATTCTGGTCTGGTTTACGTTGTTTGGAATCTTAAACTGTGCGGCAACTCTTCAACAAAAACTCC
AAGCTCATTCCCCTTCAGTTTGTCCACTTTGTCATGCTGCAGGAGAGGATCTTCAACATCTTTT
CTTCGTTTACTCTTACTCTCGTGAATGTTGGTGAAAGCTATTCTCACTTTTTCAGATTTCGTGG
GTGTTTGGCTTTTGCTTTAAAGACAATATACTTTCAGTGTTCAGTGACCCATCCCTTCCTAAAA
AATCGAATATCTTATGGTCTAATGCAGTCAAAGCACTGCTATTGGAACTTTGTTTTGAAAGAAA
TCAGAGAGTTTTCCATGATAACATACCTTGCATGGTCTGACTTGTTTGCCTCAGCATGACTCCT
AGCTTCCTCTTGGTTATCTCTCTCGGCTTTTCACAGATTATTCAATTCAAGAAATTTGCCTAAA
CTCGAATGCTTTCCTTTTTACATTATAATGTATTTCCATTGACCTTTGTTGAGCTTTCCACTTC
AATGTATTTTCTCCGTACTGTTTCTTATGTTCCTTGGATGTTTCTTCTGTTGTAACAAGGCTGT
ACATAAGTTATCCTATTTGTATCCATTTTACTATCAGGAAGTCTTTGTTTCCTTTTCACAAAAG
AAAAAAAGAAAAAGAAAAAGAGAAATGGAAACAATTTAATTGATAAATGAAATAAAGGAGGAAG
AACTCCAAGTCACCCAACGATTACATAAAATTTTGTCAGTGGAAAAATAAACAAGAAAGACTAT
AAAAAAAGGGCCTATAAAGTTTACACTAATACAAATCATATGAATTTTAAATTAGTCGATTGAC
CCGTAAGTTTAAGCTTACGAGTGAAGGTAAATTTAATATTATATCATTTAACACTTTTCCTCGG
CTTGAAATCTAATGTTAATTGGAGGGGAAATAGCATTGCAGAGGTTTGAGTGTAGGACATCTTG
AACCACTTGCTCTGGTACCATCTAAATCACCAATTAATCCAAAAGCTCAATCTTATGGGTGAAG
GTAAATTTAATATCATATCATTCAATTAAACAAGACAAATGCAAATCCACACCACTGTCGTTGG
AGGAAAATGAATCTCGGAAGTGTTGCCCTTTAGAATACAAGGGGCCTAACATCGGCAGAAAACA
AGCGTACAAAACAATTTTGCCAAGGGAAAAGAGGTCCTCTTTAATATCTGTAAAATGATGGAGG
AACTTATCTTGGACCTTCTCTTTTAGGTTTGTTTGCCACTTGAATTAGAGAGCTCTCTTGGGTA
TAACGGGTCTCGGAAGGGTTTGGAATTTTACTAATTTTTAGCATCCCTTATCCCCTTTTTCTGG
ACTCCAATAGTTGAATCTCCTGCTTAAATGTAATGTGTGTGTGTGTGTTTTGATATAAATATAT
TTGGGTGGTTTCGGTTGATTCAGAGTGATTCCTGTTCTTACGTCTTCTTTATAATTTCATTTGT
CATTATTTATAGCTTTAAGTGTCTAACTGCAATTATTCTTATGTTGTATTTGTAGCCATGGTTT
CACAAGTATCAACATCTAATAGTTCCACGGCAATAGGCTTTGATGAGAGAATGTTGCTGCATTC
AGAA
						
					

			
		

Sequences
Splice junction sequence	TTATTCTTATGTTGTATTTGTAGCCATGGTTTCACAAGTATCAACATCTAATAGTTCCACGGCA ATAGGCTTTGATGAGAGAATGTTGCTGCATTCAGAAtggttattgtcatctcgatggtattcac tgctgatcatttttcatccaacccctgaaaacaagacaaaatggtttcagaagctcttcaaaag agggtgaa
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	TGGTTATTGTCATCTCGATGGTATTCACTGCTGATCATTTTTCATCCAACCCCTGAAAACAAGA CAAAATGGTTTCAGAAGCTCTTCAAAAGAGGGTGAATGGAGAGGCTGAAGTAAATCTTCAGAAG CAAGGCGAGCAACACCCACGTCATAGTTTAAATGGAAGATGTGGAAAATCAGGCTCTGAAAGAA AGAGTGTTAGATCTTGTCCAGATGATAGTTGTCGAGAAGATAATACAGGTGTAGCTTCTTATAA AGATGTACCAAGCAGTGTAGATATAGATATGCAACCTGATTCTTTACGTGTAAGTGAAAACATT GTTTAGTAGTAAGTGCGTTTAAAGTTGTCATGCAATGTTATTGTGTCTTTTGACTGCACTGTGA GTAAATACAATACTGTTTTACTTCAGAAGAAGACAAGAAAACAGAGAGAAATAAGCTTCCAAGA TATGGGTAACAACGTCGACATATTTGATGATGGTGATGATGACGATGACGACGATAGTGACTGG GAACCGTTACAGAAACTCAGGGAAATAGTGAAGTGGTTCTGCACCAATTGTACCATGGCCAACC TTGATGTTGCTGTACACTGTGACGTCTGTTTGTGCTCCTTTTCAACATAATTTTTCTCTCTTCT GTTATGTTTTGTTTTTTCTTTAACCTTTGGTTTCAGGATGCGATTCGCATTTTTGAATGTATAT TTTCCCTTACAGTCATGTGGCGAACATAAAGAATCTGCAATTCTCAAGCATGGGTTTTTTGCTC CTTCATTTGTACAAGATTCAAATTTTTTAAAGACTGAGCTTGAAATGAAAAGAACTGATAAAGG TGAGTCACTTGTTGCAAATACACGTGTTGTGTATTTTAATTTTAATCCATTAAAGCTTCTTCTT GTCTTTGTATTCTTCATTCTTGTACTTTTAGTCTTATTTGCTTGGTAAATGGGTGGCCCTATTT CATGTCATATTGTATTATTTATTATTATTTTTTAATTTAAGACAGCTGACCATTGGTTTCCTTG AAATATTCCTAGATATGTTATTGTTAAGTATGTATAGTGAACTTATACTATTTTGAATTTAATT GGATGTTAATATTTGACCATGTATGCTGTTTCTTTTCTCCTCTCCTTGTTTGATACATGCCCAT TTTTTTTAATTAGCTTTTCTATAAATTCTTGTACGTAGTTACTAGTTCTTTTTTGAATATTTCT CTCCCCTCTTGCTAAACACTAACTCTAAACTCCAGCCTCTGATGCAGCCATCACCATCTGCTGC CATAGTCTTCGTTGTCAACGGTCATTGCCATCACTGTGAACCTTTGTGGGTTCTTCGTTCTGTC TTTTGTGTCTCTAGCATTGGCTTTTCGATGTCTTTGAATTAAAAATATCCTGTCTTTCCGTTGC CATCTGCCATTGTTTCTATCATCATATTCTGTCACCATTGTCATTATCATTGTCCTTGTTGTCG TTTCACTGTCGTTGTGGGTTTTCAACGCTTTTTGGGTTTTCTTTTCTCCTAGCCGTCTACTCCT ATTATTGGCAGTTGTTCTCCTTTGCCATCCTCCATCGTGCCAGATTCTTTTCTTCCTTTAGTTT AACTTGTTGGTTGAGAAGGGAAACATTGTCATGCCAAGCACGGTGGTAGCAGAATTAGAGAGAA TCATGTGCAATTTTTTCTGGGAAGGGCAAAAAGGCAGCAAAATAATTCACTTGGTAAATTGGAA ACCTTGCTCACAAACTATGGAGACTGGGTGTCTTGGTGTGGGAAACCTGAAAAACAGAAACTTG GCTCTTCTATTTAAATGGAATTGGAGATTTTTAAAGGATCCAAATGCATTTTGGTGCAAAATAG CGAGAAGCATCCATGGATCTAACTCCTCCCAATGGCACTCTTCTGGAAAATCTGGTCTAAGTCT TCGCAGCCCCGGGATTAGTATATAAAAAATTTGGTGTTCATTGAACCATCATGTATCTTTCAAG CTAGGTGATGGCCAAAAATCACATTCTGGAAGGATCCTTGGTGCTTAGCAGTTAGCCCAATCCT TCAGTCATGCTTTCCCCAATCTCTTCCGAATTGCAGCCAATCCCGTGGCCAAGGTTATTGCAAA TTGGGACTCTTCAACATCTTTATGGAGCCCCTCTTTTCGCTGAGCACTAAAAGATGAGGAAATT GAAGAATTTCAGCTTCTAATCGGTGGTCTACAAGGTAAAGCCATTTCCTTAGCCTTAGATTCAA GAGCGTGGTCCTTGGATTCTTCAGAAACTTTCTTGGTAAAATCTTTTAAGTTCTTAACTGCCTC TTCACAGATTGATAAATGAATTCAGCAAGCTCTATGAAAATCTAAGAGCCCAAAGAGACTAAAC ATTCTGGTCTGGTTTACGTTGTTTGGAATCTTAAACTGTGCGGCAACTCTTCAACAAAAACTCC AAGCTCATTCCCCTTCAGTTTGTCCACTTTGTCATGCTGCAGGAGAGGATCTTCAACATCTTTT CTTCGTTTACTCTTACTCTCGTGAATGTTGGTGAAAGCTATTCTCACTTTTTCAGATTTCGTGG GTGTTTGGCTTTTGCTTTAAAGACAATATACTTTCAGTGTTCAGTGACCCATCCCTTCCTAAAA AATCGAATATCTTATGGTCTAATGCAGTCAAAGCACTGCTATTGGAACTTTGTTTTGAAAGAAA TCAGAGAGTTTTCCATGATAACATACCTTGCATGGTCTGACTTGTTTGCCTCAGCATGACTCCT AGCTTCCTCTTGGTTATCTCTCTCGGCTTTTCACAGATTATTCAATTCAAGAAATTTGCCTAAA CTCGAATGCTTTCCTTTTTACATTATAATGTATTTCCATTGACCTTTGTTGAGCTTTCCACTTC AATGTATTTTCTCCGTACTGTTTCTTATGTTCCTTGGATGTTTCTTCTGTTGTAACAAGGCTGT ACATAAGTTATCCTATTTGTATCCATTTTACTATCAGGAAGTCTTTGTTTCCTTTTCACAAAAG AAAAAAAGAAAAAGAAAAAGAGAAATGGAAACAATTTAATTGATAAATGAAATAAAGGAGGAAG AACTCCAAGTCACCCAACGATTACATAAAATTTTGTCAGTGGAAAAATAAACAAGAAAGACTAT AAAAAAAGGGCCTATAAAGTTTACACTAATACAAATCATATGAATTTTAAATTAGTCGATTGAC CCGTAAGTTTAAGCTTACGAGTGAAGGTAAATTTAATATTATATCATTTAACACTTTTCCTCGG CTTGAAATCTAATGTTAATTGGAGGGGAAATAGCATTGCAGAGGTTTGAGTGTAGGACATCTTG AACCACTTGCTCTGGTACCATCTAAATCACCAATTAATCCAAAAGCTCAATCTTATGGGTGAAG GTAAATTTAATATCATATCATTCAATTAAACAAGACAAATGCAAATCCACACCACTGTCGTTGG AGGAAAATGAATCTCGGAAGTGTTGCCCTTTAGAATACAAGGGGCCTAACATCGGCAGAAAACA AGCGTACAAAACAATTTTGCCAAGGGAAAAGAGGTCCTCTTTAATATCTGTAAAATGATGGAGG AACTTATCTTGGACCTTCTCTTTTAGGTTTGTTTGCCACTTGAATTAGAGAGCTCTCTTGGGTA TAACGGGTCTCGGAAGGGTTTGGAATTTTACTAATTTTTAGCATCCCTTATCCCCTTTTTCTGG ACTCCAATAGTTGAATCTCCTGCTTAAATGTAATGTGTGTGTGTGTGTTTTGATATAAATATAT TTGGGTGGTTTCGGTTGATTCAGAGTGATTCCTGTTCTTACGTCTTCTTTATAATTTCATTTGT CATTATTTATAGCTTTAAGTGTCTAACTGCAATTATTCTTATGTTGTATTTGTAGCCATGGTTT CACAAGTATCAACATCTAATAGTTCCACGGCAATAGGCTTTGATGAGAGAATGTTGCTGCATTC AGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.092194463

Conservation Information
Conserved circRNAs	NA
PMCS	0.092194463

			
						 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.132

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