Plant Circular RNA Database

Detail information of Csa3G912290_circ_g.6

			
						 General Information
					
						CircRNA Name
						Csa3G912290_circ_g.6
					
						ID in PlantcircBase
						csa_circ_002246
					
						Alias
						Chr3:39463940_39465481
					
						Organism
						
							Cucumis sativus						
					
						Position
						
							chrChr3: 39463940-39465481  JBrowse»						
					
						Reference genome
						
							Cucumis sativus v1.5						
					
						Type  
						
							e-circRNA							
									
						Identification method
						Find_circ
					
						Parent gene
						
							Csa3G912290						
					
						Parent gene annotation
						
							NA							
					
						Parent gene strand
						+
					
						Alternative splicing
						
							Csa3G912290_circ_g.7 						
					
						Support reads
						NA
					
						Tissues
						leaf
					
						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
						Csa3G912290.1:4

General Information
CircRNA Name	Csa3G912290_circ_g.6
ID in PlantcircBase	csa_circ_002246
Alias	Chr3:39463940_39465481
Organism	Cucumis sativus
Position	chrChr3: 39463940-39465481 JBrowse»
Reference genome	Cucumis sativus v1.5
Type	e-circRNA
Identification method	Find_circ
Parent gene	Csa3G912290
Parent gene annotation	NA
Parent gene strand	+
Alternative splicing	Csa3G912290_circ_g.7
Support reads	NA
Tissues	leaf
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	Csa3G912290.1:4

			
						 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  
						
							TGGATCCTTAGATCTCTATGCTTGTGATGATGATGAGGGAAAGCGTATGCAGCTTTTCATTTCA
ACAAAACCATGTCCCTATCAATCTGTACCAACCAAGttaacatcaagagttgagctaccgtcag
gttgggaatggattgatgattggcatttggacaagacatctcaaactgctgatgatggttgggt
ttatgctc

									
								

					

						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
						
							TTAACATCAAGAGTTGAGCTACCGTCAGGTTGGGAATGGATTGATGATTGGCATTTGGACAAGA
CATCTCAAACTGCTGATGATGGTTGGGTTTATGCTCCAGATGTCAAAAGTTTAAAATGGCCTGA
TTCCTCCGACTCAAAATCTGTAAACCATGCAAGGCAAAGGAGGTGGGTCAGAAATAGGAGACAG
ATCGTAAACAATATAAAGAAGGAAGTATTCATAGGGCAGTTGAAGCCAGGTGATACAGTTCCTC
TACCTTTATCGGTGCTGAAACATTCTGGACTTTATATCTTTCATTTTAGGCCTTCGACTCTTAA
TAATTGTGATGAGTACTCTTGGAGTTCAGTTGTAGATAAACCAAATAAAGAGGATGTTAATGGG
CCTCATATTTTTTCTGAAATATGTATTTCAACCCTAAGTGAATCTGAGGAGTTGTTGTATTGTG
CTCAGACAAGCGGAACGTCGTCAAGTAGTACCCATATGTTATGGTTTTGCTTAGGCATACGAGC
ATTGGAAATTGCCAAAGATATACACTCTGACCCTATTCAGGACTGGAATCTTGTTATCAAGGCT
CCATTATCTATTGCCAATTACCTTCCACTTGTTACAGAATTTTCTGTTCTAGAGAAACAGAAAA
GTGGCCATTTCATTGATTGCTGCAGAGCAATCCTTCATCCAGGGAAAACTGTGAAGGTCTACGA
TGCTGATATCAGAAATCCATTGTTCTTTTCACTCTTCCCACAGAGGGGATGGCTTCCTGTACAT
GTAAATTTAGTTCTCTTTCATCTTGCTACATTGTTTATGAGAGAATTTGCTGAATTCATGGGTT
TTTTCTTAAACCTCTGTTTTTTTCCTTTTTGACAGGAAGCAGTTCTTATATCCCATCCTCATGG
AGTTCCATCAAGAACATTAAGTTTGAGAAGTTCAATTACTGGAAGGTTCCATTTTTTATCCCTA
CCCTACTTGTCTCTCAATTTATCTTCATGGAGACCAACTTGGGTGTGATTTGTGCAGGGTTGTT
CAAGTTATTCTTGAACAAAATCATAATAAGGAACATCCATTTCTGGAGAAGATCATCAGATTCT
ATGCGCCCTACTGGTTTTCTATTTCTAGATGCCCTCCTCTCACACTCCATCTTGTAGACAGATC
AGGGAGAAAAAAATCGCGAAAGATTTATCACCGGTTTAAGTCCAACACTAATACCGACATATTT
GAGGAAATAACTGAAGAAGAAATACACGAAGGCTACACAATCGCTTCTGCTCTGAACTTCAATT
CGTTGGGCCTCTCTGTGTCAATTAATCAATCTGGGACAAACAAATGTGTAACTGTCGAAGATCT
ATCTCCTCTTGGCGACATGGTAAGTATTTCAAATTATGAGTCTATTATCTTCTTCAAATGGAAC
GGACTTCGTTATTTATTTGATTTTATCTGCAGGATGGATCCTTAGATCTCTATGCTTGTGATGA
TGATGAGGGAAAGCGTATGCAGCTTTTCATTTCAACAAAACCATGTCCCTATCAATCTGTACCA
ACCAAG
						
					

			
		

Sequences
Splice junction sequence	TGGATCCTTAGATCTCTATGCTTGTGATGATGATGAGGGAAAGCGTATGCAGCTTTTCATTTCA ACAAAACCATGTCCCTATCAATCTGTACCAACCAAGttaacatcaagagttgagctaccgtcag gttgggaatggattgatgattggcatttggacaagacatctcaaactgctgatgatggttgggt ttatgctc
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	TTAACATCAAGAGTTGAGCTACCGTCAGGTTGGGAATGGATTGATGATTGGCATTTGGACAAGA CATCTCAAACTGCTGATGATGGTTGGGTTTATGCTCCAGATGTCAAAAGTTTAAAATGGCCTGA TTCCTCCGACTCAAAATCTGTAAACCATGCAAGGCAAAGGAGGTGGGTCAGAAATAGGAGACAG ATCGTAAACAATATAAAGAAGGAAGTATTCATAGGGCAGTTGAAGCCAGGTGATACAGTTCCTC TACCTTTATCGGTGCTGAAACATTCTGGACTTTATATCTTTCATTTTAGGCCTTCGACTCTTAA TAATTGTGATGAGTACTCTTGGAGTTCAGTTGTAGATAAACCAAATAAAGAGGATGTTAATGGG CCTCATATTTTTTCTGAAATATGTATTTCAACCCTAAGTGAATCTGAGGAGTTGTTGTATTGTG CTCAGACAAGCGGAACGTCGTCAAGTAGTACCCATATGTTATGGTTTTGCTTAGGCATACGAGC ATTGGAAATTGCCAAAGATATACACTCTGACCCTATTCAGGACTGGAATCTTGTTATCAAGGCT CCATTATCTATTGCCAATTACCTTCCACTTGTTACAGAATTTTCTGTTCTAGAGAAACAGAAAA GTGGCCATTTCATTGATTGCTGCAGAGCAATCCTTCATCCAGGGAAAACTGTGAAGGTCTACGA TGCTGATATCAGAAATCCATTGTTCTTTTCACTCTTCCCACAGAGGGGATGGCTTCCTGTACAT GTAAATTTAGTTCTCTTTCATCTTGCTACATTGTTTATGAGAGAATTTGCTGAATTCATGGGTT TTTTCTTAAACCTCTGTTTTTTTCCTTTTTGACAGGAAGCAGTTCTTATATCCCATCCTCATGG AGTTCCATCAAGAACATTAAGTTTGAGAAGTTCAATTACTGGAAGGTTCCATTTTTTATCCCTA CCCTACTTGTCTCTCAATTTATCTTCATGGAGACCAACTTGGGTGTGATTTGTGCAGGGTTGTT CAAGTTATTCTTGAACAAAATCATAATAAGGAACATCCATTTCTGGAGAAGATCATCAGATTCT ATGCGCCCTACTGGTTTTCTATTTCTAGATGCCCTCCTCTCACACTCCATCTTGTAGACAGATC AGGGAGAAAAAAATCGCGAAAGATTTATCACCGGTTTAAGTCCAACACTAATACCGACATATTT GAGGAAATAACTGAAGAAGAAATACACGAAGGCTACACAATCGCTTCTGCTCTGAACTTCAATT CGTTGGGCCTCTCTGTGTCAATTAATCAATCTGGGACAAACAAATGTGTAACTGTCGAAGATCT ATCTCCTCTTGGCGACATGGTAAGTATTTCAAATTATGAGTCTATTATCTTCTTCAAATGGAAC GGACTTCGTTATTTATTTGATTTTATCTGCAGGATGGATCCTTAGATCTCTATGCTTGTGATGA TGATGAGGGAAAGCGTATGCAGCTTTTCATTTCAACAAAACCATGTCCCTATCAATCTGTACCA ACCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.106441261

Conservation Information
Conserved circRNAs	NA
PMCS	0.106441261

			
				
						 Functional Information
					

				
						Coding potential
						Y
					

						Potential coding position
						
							39464424-39465478(+)
39465400-39463940(+)
						
					

						Potential amino acid sequence
						
							MLWFCLGIRALEIAKDIHSDPIQDWNLVIKAPLSIANYLPLVTEFSVLEKQKSGHFIDCCRAIL
HPGKTVKVYDADIRNPLFFSLFPQRGWLPVHEAVLISHPHGVPSRTLSLRSSITGRVVQVILEQ
NHNKEHPFLEKIIRFYAPYWFSISRCPPLTLHLVDRSGRKKSRKIYHRFKSNTNTDIFEEITEE
EIHEGYTIASALNFNSLGLSVSINQSGTNKCVTVEDLSPLGDMDGSLDLYACDDDEGKRMQLFI
STKPCPYQSVPTKLTSRVELPSGWEWIDDWHLDKTSQTADDGWVYAPDVKSLKWPDSSDSKSVN
HARQRRWVRNRRQIVNNIKKEVFIGQLKPGDTVPLPLSVLKHSGLYIFHFRPSTLNNCDEYSWS
SVVDKPNKEDVNGPHIFSEICISTLSESEELLYCAQTSGTSSSSTHMLWFCLGIRALEIAKDIH
SDPIQDWNLVIKAPLSIANYLPLVTEFSVLEKQKSGHFIDCCRAILHPGKTVKVYDADIRNPLF
FSLFPQRGWLPVHEAVLISHPHGVPSRTLSLRSSITGRVVQVILEQNHNKEHPFLEKIIRFYAP
YWFSISRCPPLTLHLVDRSGRKKSRKIYHRFKSNTNTDIFEEITEEEIHEGYTIASALNFNSLG
LSVSINQSGTNKCVTVEDLSPLGDMDGSLDLYACDDDEGKRMQLFISTKPCPYQSVPTKLTSRV
ELPSGWEWIDDWHLDKTSQTADDGWVYAPDVKSLKWPDSSDSKSVNHARQRRWVRNRRQIVNNI
KKEVFIGQLKPGDTVPLPLSVLKHSGLYIFHFRPSTLNNCDEYSWSSVVDKPNKEDVNGPHIFS
EICISTLSESEELLYCAQTSGTSSSSTHMLWFCLGIRALEIAKDIHSDPIQDWNLVIKAPLSIA
NYLPLVTEFSVLEKQKSGHFIDCCRAILHPGKTVKVYDADIRNPLFFSLFPQRGWLPVHEAVLI
SHPHGVPSRTLSLRSSITGRVVQVILEQNHNKEHPFLEKIIRFYAPYWFSISRCPPLTLHLVDR
SGRKKSRKIYHRFKSNTNTDIFEEITEEEIHEGYTIASALNFNSLGLSVSINQSGTNKCVTVED
LSPLGDMDGSLDLYACDDDEGKRMQLFISTKPCPYQSVPTKLTSRVELPSGWEWIDDWHLDKTS
QTADDGWVYAPDVKSLKWPDSSDSKSVNHARQRRWVRNRRQIVNNIKKEVFIGQLKPGDTVPLP
LSVLKHSGLYIFHFRPSTLNNCDEYSWSSVVDKPNKEDVNGPHIFSEICISTLSESEELLYCAQ
TSGTSSSSTHMLWFCLGIRALEIAKDIHSDPIQDWNLVIKAPLSIANYLPLVTEFSVLEKQKSG
HFIDCCRAILHPGKTVKVYDADIRNPLFFSLFPQRGWLPVHEAVLISHPHGVPSRTLSLRSSIT
GRVVQVILEQNHNKEHPFLEKIIRFYAPYWFSISRCPPLTLHLVDRSGRKKSRKIYHRFKSNTN
TDIFEEITEEEIHEGYTIASALNFNSLGLSVSINQSGTNKCVTVEDLSPLGDMDGSLDLYACDD
DEGKRMQLFISTKPCPYQSVPTK
MLVMMMRESVCSFSFQQNHVPINLYQPS*
						
					

						Sponge-miRNAs
						
							NA						
					

						circRNA-miRNA-mRNA network
						 VISUALIZATION
					

						Potential function description
						NA
					

			
		

Functional Information
Coding potential	Y
Potential coding position	39464424-39465478(+) 39465400-39463940(+)
Potential amino acid sequence	MLWFCLGIRALEIAKDIHSDPIQDWNLVIKAPLSIANYLPLVTEFSVLEKQKSGHFIDCCRAIL HPGKTVKVYDADIRNPLFFSLFPQRGWLPVHEAVLISHPHGVPSRTLSLRSSITGRVVQVILEQ NHNKEHPFLEKIIRFYAPYWFSISRCPPLTLHLVDRSGRKKSRKIYHRFKSNTNTDIFEEITEE EIHEGYTIASALNFNSLGLSVSINQSGTNKCVTVEDLSPLGDMDGSLDLYACDDDEGKRMQLFI STKPCPYQSVPTKLTSRVELPSGWEWIDDWHLDKTSQTADDGWVYAPDVKSLKWPDSSDSKSVN HARQRRWVRNRRQIVNNIKKEVFIGQLKPGDTVPLPLSVLKHSGLYIFHFRPSTLNNCDEYSWS SVVDKPNKEDVNGPHIFSEICISTLSESEELLYCAQTSGTSSSSTHMLWFCLGIRALEIAKDIH SDPIQDWNLVIKAPLSIANYLPLVTEFSVLEKQKSGHFIDCCRAILHPGKTVKVYDADIRNPLF FSLFPQRGWLPVHEAVLISHPHGVPSRTLSLRSSITGRVVQVILEQNHNKEHPFLEKIIRFYAP YWFSISRCPPLTLHLVDRSGRKKSRKIYHRFKSNTNTDIFEEITEEEIHEGYTIASALNFNSLG LSVSINQSGTNKCVTVEDLSPLGDMDGSLDLYACDDDEGKRMQLFISTKPCPYQSVPTKLTSRV ELPSGWEWIDDWHLDKTSQTADDGWVYAPDVKSLKWPDSSDSKSVNHARQRRWVRNRRQIVNNI KKEVFIGQLKPGDTVPLPLSVLKHSGLYIFHFRPSTLNNCDEYSWSSVVDKPNKEDVNGPHIFS EICISTLSESEELLYCAQTSGTSSSSTHMLWFCLGIRALEIAKDIHSDPIQDWNLVIKAPLSIA NYLPLVTEFSVLEKQKSGHFIDCCRAILHPGKTVKVYDADIRNPLFFSLFPQRGWLPVHEAVLI SHPHGVPSRTLSLRSSITGRVVQVILEQNHNKEHPFLEKIIRFYAPYWFSISRCPPLTLHLVDR SGRKKSRKIYHRFKSNTNTDIFEEITEEEIHEGYTIASALNFNSLGLSVSINQSGTNKCVTVED LSPLGDMDGSLDLYACDDDEGKRMQLFISTKPCPYQSVPTKLTSRVELPSGWEWIDDWHLDKTS QTADDGWVYAPDVKSLKWPDSSDSKSVNHARQRRWVRNRRQIVNNIKKEVFIGQLKPGDTVPLP LSVLKHSGLYIFHFRPSTLNNCDEYSWSSVVDKPNKEDVNGPHIFSEICISTLSESEELLYCAQ TSGTSSSSTHMLWFCLGIRALEIAKDIHSDPIQDWNLVIKAPLSIANYLPLVTEFSVLEKQKSG HFIDCCRAILHPGKTVKVYDADIRNPLFFSLFPQRGWLPVHEAVLISHPHGVPSRTLSLRSSIT GRVVQVILEQNHNKEHPFLEKIIRFYAPYWFSISRCPPLTLHLVDRSGRKKSRKIYHRFKSNTN TDIFEEITEEEIHEGYTIASALNFNSLGLSVSINQSGTNKCVTVEDLSPLGDMDGSLDLYACDD DEGKRMQLFISTKPCPYQSVPTK MLVMMMRESVCSFSFQQNHVPINLYQPS*
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						He et al., 2020

circRNA

Detail information of Csa3G912290_circ_g.6

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