Plant Circular RNA Database

Detail information of Csa2G368880_circ_g.1

			
						 General Information
					
						CircRNA Name
						Csa2G368880_circ_g.1
					
						ID in PlantcircBase
						csa_circ_001168
					
						Alias
						Chr2:17841491_17843663
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr2: 17841491-17843663  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Csa2G368880						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							Csa2G368880_circ_g.2 						
					
						Support reads
						NA
					
						Tissues
						leaf,root
					
						Exon boundary  
						
							Yes-Yes							"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
						Csa2G368880.1:8

General Information
CircRNA Name	Csa2G368880_circ_g.1
ID in PlantcircBase	csa_circ_001168
Alias	Chr2:17841491_17843663
Organism	Cucumis sativus
Position	chrChr2: 17841491-17843663 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	CIRI2
Parent gene	Csa2G368880
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	Csa2G368880_circ_g.2
Support reads	NA
Tissues	leaf,root
Exon boundary	Yes-Yes "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	Csa2G368880.1:8

			
						 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  
						
							TGATTGGGAGCTTTTGAATGATGTGAAAGCCATATGGCTGAGGAGTCCCAAAGAGGTCACGGAG
GAAGAGTATACTAAATTCTACCACTCTCTTGCCAAGgtcctagatttcatgccaaggctgacgt
tgatgccgacgaggtcgtagatccaccaaaggttgaggaaaaaatcggcgccgttccacacggt
ctctccac

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 1049
Transcript exons: 17841491-17841611,17841709-17841862,17841954-17842034,17
842159-17842270,17842355-17842481,17842566-17842704,1784
3232-17843349,17843467-17843663
GTCCTAGATTTCATGCCAAGGCTGACGTTGATGCCGACGAGGTCGTAGATCCACCAAAGGTTGA
GGAAAAAATCGGCGCCGTTCCACACGGTCTCTCCACTGATTCTGATGTTGTTAAGAGAGAATCG
GAGTCAATCTCGAGGAGATCTCTTCGCAGTAGCGGGGAGAAGTTTGAGTTCCAAGCTGAGGTGT
CTCGTCTCATGGATATTATTATCAACTCCTTATATAGTAACAAAGACATTTTCCTAAGAGAATT
GATCTCCAACGCTTCTGATGCGTTGGATAAGATTAGGTTCCTTTCCCTAACCGATAAAGAGATA
TTGGGTGAGGGAGACAACTCGAAGTTGGAGATTCAAATTAAGTTGGACAAAGCAAACAAAATCC
TTTCAATTCGCGACAGAGGTATTGGTATGACAAAAGAGGATTTGATTAAGAACTTGGGAACCAT
AGCAAAATCTGGAACTTCAGCATTTGTGGAAAAAATGCAGACAAGCGGAGATCTCAACCTTATT
GGACAATTTGGAGTGGGTTTCTACTCCGTGTATCTTGTGGCTGATTACGTTGAAGTAATCAGTA
AACACAACGATGACAAACAACATGTATGGGAGTCCAAGGCTGATGGAGCATTCGCAATCTCTGA
AGATACCTGGAATGAACCTTTAGGCCGTGGAACTGAAATTAGACTGCACCTTAGAGATGAAGCT
CAAGAATACCTGGAGGAGGGCAAACTGAAGGATTTGGTGAAAAGATATTCAGAATTTATTAACT
TCCCCATTTATATCTGGGGAAGCAAAGAGGTTGAGGTGGAGGTTCCTGCCGACGAGGATGAATC
CAACGATGAAGATGAATCACCTGAAAGCTCTTCAGAAGAAGGGGAAGATGATGCCGAAAAGAGT
GAAGATGAAGATTCTGATAAGCCGAAGACAAAGAAAGTCAAAGAAACAACGTATGATTGGGAGC
TTTTGAATGATGTGAAAGCCATATGGCTGAGGAGTCCCAAAGAGGTCACGGAGGAAGAGTATAC
TAAATTCTACCACTCTCTTGCCAAG
						
					

						Genomic sequence
						
							GTCCTAGATTTCATGCCAAGGCTGACGTTGATGCCGACGAGGTCGTAGATCCACCAAAGGTTGA
GGAAAAAATCGGCGCCGTTCCACACGGTCTCTCCACTGATTCTGATGTTGTTAAGAGGTTTGTG
AATGTCTAATCTCGTTGATACACGCTTCCAAGTATAGATTTGTTCACTTCGGGAAAATATTATC
GTATCTTATTTTGAATGTTGATTCAGAGAATCGGAGTCAATCTCGAGGAGATCTCTTCGCAGTA
GCGGGGAGAAGTTTGAGTTCCAAGCTGAGGTGTCTCGTCTCATGGATATTATTATCAACTCCTT
ATATAGTAACAAAGACATTTTCCTAAGAGAATTGATCTCCAACGCTTCTGATGTAAGTTCACTC
TGCCTCTTCTCACTCCATCAGATCTAGTAATCTCATTGTTAGATTTGTGTTAGTTAATGATGGC
GTCTCTGCATTTCAGGCGTTGGATAAGATTAGGTTCCTTTCCCTAACCGATAAAGAGATATTGG
GTGAGGGAGACAACTCGAAGTTGGAGATTCAAGTGAGTTCGACCTTCATACTAGATTAGACATA
TTGTTTTCTTATCACCTCGCTGTAAAGAATTGCTCGTTCTGGTTGATGAACCTTGCATATTTTT
ATTGTTGTCCATAAATCAAATATCGCAGATTAAGTTGGACAAAGCAAACAAAATCCTTTCAATT
CGCGACAGAGGTATTGGTATGACAAAAGAGGATTTGATTAAGAACTTGGGAACCATAGCAAAAT
CTGGAACTTCAGGTAATTTTAATATAAAAGCTGGTTTGTTTTTTTATCTCGGTGGTGTAATGTG
AAAGATACTGAATCTGTTATCTTCATGTGCAGCATTTGTGGAAAAAATGCAGACAAGCGGAGAT
CTCAACCTTATTGGACAATTTGGAGTGGGTTTCTACTCCGTGTATCTTGTGGCTGATTACGTTG
AAGTAATCAGTAAACACAACGATGACAAACAGTGAGCAACCCTCATTACTATTCCGATGCGTTT
GCCATTGTCTTGTTGTTAGTTACTGTATGCTGACTTCTTCCTTGTTTCCAGACATGTATGGGAG
TCCAAGGCTGATGGAGCATTCGCAATCTCTGAAGATACCTGGAATGAACCTTTAGGCCGTGGAA
CTGAAATTAGACTGCACCTTAGAGATGAAGCTCAAGAATACCTGGAGGAGGGCAAACTGAAGGT
AAGTTCGGTTTGCTTTTCTCGTTACCTGCTTTTAGTGTTCGTTAATGATTTAGATTGTTATCTG
TCTGCATGGAAGTGGCTTGAACTTGTGCTTTTCAATGCACTTTGAGTATTCGCTGTGTATTATT
TTGGTTTTTACTTATTCATTATGCGTCGATGACACATTTCAGCCGTTAATTGATTATCTTTCGG
AATTGTTATCACGTACATTTTCTCTGTTTCATTATGTTGAGCCTAATTCCTTCCCGCACATTGA
ACTTATTGCTACTTTTTCTTAACTACCTTTTGCAACCAGCAATTTGTTTTTCGTTCCGTGTCTC
CCAAAAGTTATAGGGCGCCATGTGACAACAGCCCTCTTATTTTGCATGCTTCCCGTTTAACTTG
GGAGCCATACCAACCCTCTAGATTGATGATCTGTTTATTGGTTAAAATTTCTGAATCGTGCACG
TTCTTGTTTAGTTGGTGGTATCTTCAACATTATTATCATTGTTTGAACTTATATGTGTGGCCAT
TGTTTCTCTATAGGATTTGGTGAAAAGATATTCAGAATTTATTAACTTCCCCATTTATATCTGG
GGAAGCAAAGAGGTTGAGGTGGAGGTTCCTGCCGACGAGGATGAATCCAACGATGAAGATGAAT
CACGTATGTATTATCTTGGATGTTTGGATATGCACATATAATTTCCTTCGTGGTGGCAAAAAAA
CTATTCGTTGATCATGGTTGTAGGTCGTTCTAATTACTTTTTCTCTTATAAAACAGCTGAAAGC
TCTTCAGAAGAAGGGGAAGATGATGCCGAAAAGAGTGAAGATGAAGATTCTGATAAGCCGAAGA
CAAAGAAAGTCAAAGAAACAACGTATGATTGGGAGCTTTTGAATGATGTGAAAGCCATATGGCT
GAGGAGTCCCAAAGAGGTCACGGAGGAAGAGTATACTAAATTCTACCACTCTCTTGCCAAG
						
					

			
		

Sequences
Splice junction sequence	TGATTGGGAGCTTTTGAATGATGTGAAAGCCATATGGCTGAGGAGTCCCAAAGAGGTCACGGAG GAAGAGTATACTAAATTCTACCACTCTCTTGCCAAGgtcctagatttcatgccaaggctgacgt tgatgccgacgaggtcgtagatccaccaaaggttgaggaaaaaatcggcgccgttccacacggt ctctccac
Assembled circRNA sequence	Yes 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	Transcript length: 1049 Transcript exons: 17841491-17841611,17841709-17841862,17841954-17842034,17 842159-17842270,17842355-17842481,17842566-17842704,1784 3232-17843349,17843467-17843663 GTCCTAGATTTCATGCCAAGGCTGACGTTGATGCCGACGAGGTCGTAGATCCACCAAAGGTTGA GGAAAAAATCGGCGCCGTTCCACACGGTCTCTCCACTGATTCTGATGTTGTTAAGAGAGAATCG GAGTCAATCTCGAGGAGATCTCTTCGCAGTAGCGGGGAGAAGTTTGAGTTCCAAGCTGAGGTGT CTCGTCTCATGGATATTATTATCAACTCCTTATATAGTAACAAAGACATTTTCCTAAGAGAATT GATCTCCAACGCTTCTGATGCGTTGGATAAGATTAGGTTCCTTTCCCTAACCGATAAAGAGATA TTGGGTGAGGGAGACAACTCGAAGTTGGAGATTCAAATTAAGTTGGACAAAGCAAACAAAATCC TTTCAATTCGCGACAGAGGTATTGGTATGACAAAAGAGGATTTGATTAAGAACTTGGGAACCAT AGCAAAATCTGGAACTTCAGCATTTGTGGAAAAAATGCAGACAAGCGGAGATCTCAACCTTATT GGACAATTTGGAGTGGGTTTCTACTCCGTGTATCTTGTGGCTGATTACGTTGAAGTAATCAGTA AACACAACGATGACAAACAACATGTATGGGAGTCCAAGGCTGATGGAGCATTCGCAATCTCTGA AGATACCTGGAATGAACCTTTAGGCCGTGGAACTGAAATTAGACTGCACCTTAGAGATGAAGCT CAAGAATACCTGGAGGAGGGCAAACTGAAGGATTTGGTGAAAAGATATTCAGAATTTATTAACT TCCCCATTTATATCTGGGGAAGCAAAGAGGTTGAGGTGGAGGTTCCTGCCGACGAGGATGAATC CAACGATGAAGATGAATCACCTGAAAGCTCTTCAGAAGAAGGGGAAGATGATGCCGAAAAGAGT GAAGATGAAGATTCTGATAAGCCGAAGACAAAGAAAGTCAAAGAAACAACGTATGATTGGGAGC TTTTGAATGATGTGAAAGCCATATGGCTGAGGAGTCCCAAAGAGGTCACGGAGGAAGAGTATAC TAAATTCTACCACTCTCTTGCCAAG
Genomic sequence	GTCCTAGATTTCATGCCAAGGCTGACGTTGATGCCGACGAGGTCGTAGATCCACCAAAGGTTGA GGAAAAAATCGGCGCCGTTCCACACGGTCTCTCCACTGATTCTGATGTTGTTAAGAGGTTTGTG AATGTCTAATCTCGTTGATACACGCTTCCAAGTATAGATTTGTTCACTTCGGGAAAATATTATC GTATCTTATTTTGAATGTTGATTCAGAGAATCGGAGTCAATCTCGAGGAGATCTCTTCGCAGTA GCGGGGAGAAGTTTGAGTTCCAAGCTGAGGTGTCTCGTCTCATGGATATTATTATCAACTCCTT ATATAGTAACAAAGACATTTTCCTAAGAGAATTGATCTCCAACGCTTCTGATGTAAGTTCACTC TGCCTCTTCTCACTCCATCAGATCTAGTAATCTCATTGTTAGATTTGTGTTAGTTAATGATGGC GTCTCTGCATTTCAGGCGTTGGATAAGATTAGGTTCCTTTCCCTAACCGATAAAGAGATATTGG GTGAGGGAGACAACTCGAAGTTGGAGATTCAAGTGAGTTCGACCTTCATACTAGATTAGACATA TTGTTTTCTTATCACCTCGCTGTAAAGAATTGCTCGTTCTGGTTGATGAACCTTGCATATTTTT ATTGTTGTCCATAAATCAAATATCGCAGATTAAGTTGGACAAAGCAAACAAAATCCTTTCAATT CGCGACAGAGGTATTGGTATGACAAAAGAGGATTTGATTAAGAACTTGGGAACCATAGCAAAAT CTGGAACTTCAGGTAATTTTAATATAAAAGCTGGTTTGTTTTTTTATCTCGGTGGTGTAATGTG AAAGATACTGAATCTGTTATCTTCATGTGCAGCATTTGTGGAAAAAATGCAGACAAGCGGAGAT CTCAACCTTATTGGACAATTTGGAGTGGGTTTCTACTCCGTGTATCTTGTGGCTGATTACGTTG AAGTAATCAGTAAACACAACGATGACAAACAGTGAGCAACCCTCATTACTATTCCGATGCGTTT GCCATTGTCTTGTTGTTAGTTACTGTATGCTGACTTCTTCCTTGTTTCCAGACATGTATGGGAG TCCAAGGCTGATGGAGCATTCGCAATCTCTGAAGATACCTGGAATGAACCTTTAGGCCGTGGAA CTGAAATTAGACTGCACCTTAGAGATGAAGCTCAAGAATACCTGGAGGAGGGCAAACTGAAGGT AAGTTCGGTTTGCTTTTCTCGTTACCTGCTTTTAGTGTTCGTTAATGATTTAGATTGTTATCTG TCTGCATGGAAGTGGCTTGAACTTGTGCTTTTCAATGCACTTTGAGTATTCGCTGTGTATTATT TTGGTTTTTACTTATTCATTATGCGTCGATGACACATTTCAGCCGTTAATTGATTATCTTTCGG AATTGTTATCACGTACATTTTCTCTGTTTCATTATGTTGAGCCTAATTCCTTCCCGCACATTGA ACTTATTGCTACTTTTTCTTAACTACCTTTTGCAACCAGCAATTTGTTTTTCGTTCCGTGTCTC CCAAAAGTTATAGGGCGCCATGTGACAACAGCCCTCTTATTTTGCATGCTTCCCGTTTAACTTG GGAGCCATACCAACCCTCTAGATTGATGATCTGTTTATTGGTTAAAATTTCTGAATCGTGCACG TTCTTGTTTAGTTGGTGGTATCTTCAACATTATTATCATTGTTTGAACTTATATGTGTGGCCAT TGTTTCTCTATAGGATTTGGTGAAAAGATATTCAGAATTTATTAACTTCCCCATTTATATCTGG GGAAGCAAAGAGGTTGAGGTGGAGGTTCCTGCCGACGAGGATGAATCCAACGATGAAGATGAAT CACGTATGTATTATCTTGGATGTTTGGATATGCACATATAATTTCCTTCGTGGTGGCAAAAAAA CTATTCGTTGATCATGGTTGTAGGTCGTTCTAATTACTTTTTCTCTTATAAAACAGCTGAAAGC TCTTCAGAAGAAGGGGAAGATGATGCCGAAAAGAGTGAAGATGAAGATTCTGATAAGCCGAAGA CAAAGAAAGTCAAAGAAACAACGTATGATTGGGAGCTTTTGAATGATGTGAAAGCCATATGGCT GAGGAGTCCCAAAGAGGTCACGGAGGAAGAGTATACTAAATTCTACCACTCTCTTGCCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.524674996

Conservation Information
Conserved circRNAs	NA
PMCS	0.524674996

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							17841789-17841535(+)
						
						Potential amino acid sequence
						
							MDIIINSLYSNKDIFLRELISNASDALDKIRFLSLTDKEILGEGDNSKLEIQIKLDKANKILSI
RDRGIGMTKEDLIKNLGTIAKSGTSAFVEKMQTSGDLNLIGQFGVGFYSVYLVADYVEVISKHN
DDKQHVWESKADGAFAISEDTWNEPLGRGTEIRLHLRDEAQEYLEEGKLKDLVKRYSEFINFPI
YIWGSKEVEVEVPADEDESNDEDESPESSSEEGEDDAEKSEDEDSDKPKTKKVKETTYDWELLN
DVKAIWLRSPKEVTEEEYTKFYHSLAKVLDFMPRLTLMPTRS*
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to salt stress in root

Functional Information
Coding potential	Y
Potential coding position	17841789-17841535(+)
Potential amino acid sequence	MDIIINSLYSNKDIFLRELISNASDALDKIRFLSLTDKEILGEGDNSKLEIQIKLDKANKILSI RDRGIGMTKEDLIKNLGTIAKSGTSAFVEKMQTSGDLNLIGQFGVGFYSVYLVADYVEVISKHN DDKQHVWESKADGAFAISEDTWNEPLGRGTEIRLHLRDEAQEYLEEGKLKDLVKRYSEFINFPI YIWGSKEVEVEVPADEDESNDEDESPESSSEEGEDDAEKSEDEDSDKPKTKKVKETTYDWELLN DVKAIWLRSPKEVTEEEYTKFYHSLAKVLDFMPRLTLMPTRS*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to salt stress in root

			
						 Other Information
					
						References
						Zhu et al., 2019

circRNA

Detail information of Csa2G368880_circ_g.1

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