Plant Circular RNA Database

Detail information of AT4G28710_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT4G28710_circ_g.5
					
						ID in PlantcircBase
						ath_circ_033369
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 14177875-14179729  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT4G28710						
					
						Parent gene annotation
						
							Myosin-14
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT4G28710_circ_g.4 						
					
						Support reads
						1
					
						Tissues
						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
						AT4G28710.1:8

General Information
CircRNA Name	AT4G28710_circ_g.5
ID in PlantcircBase	ath_circ_033369
Alias	NA
Organism	Arabidpsis thaliana
Position	chr4: 14177875-14179729 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT4G28710
Parent gene annotation	Myosin-14
Parent gene strand	+
Alternative splicing	AT4G28710_circ_g.4
Support reads	1
Tissues	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	AT4G28710.1:8

			
						 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  
						
							ATTTACAATATACAAATGCCTCCTTCATTGGAAATCCTTTGAAGCTGAAAGGACTAGTGTGTTT
GATCGTCTTGTTCAAATGATTGGTTCTGCTATCAAGagtcattgtcgcaaattcctggcccagt
tgcactaccagaggctcaagaaagcagcaattacaacacaaagtgcatggagagcaaggttagc
ccgtaaag

									
								

					

						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
						
							AGTCATTGTCGCAAATTCCTGGCCCAGTTGCACTACCAGAGGCTCAAGAAAGCAGCAATTACAA
CACAAAGTGCATGGAGAGCAAGGTTAGCCCGTAAAGAACTGCGGAAGCTTAAGATGGTGAGCCT
TCTCTTCACTTTGTGTGTATCCTCGTTCTCGTTTTAAGCATAGTATACTATATGGCAATTGCAA
CAGTTCAGATAATGTTGGGTTTTAAATGAGCTTATATAATGGAAATATATGTCCTTACATAACG
ATTGGCTGAGGTTTTAAAGTTGAGCTGGCTCTTTTGATGCAATTGCTAGAAGCTGGAAATTATC
TTTGCCGTTTGAGGGTCTACGAAATTTAGGCAGAAGATGTTAGCTTTTCCCAAAATATGAATAA
TTGCAACCATGACGCCTTCATATTTCGTGCAGGCTGCAAAGGAAACGGGAGTCCTTGAAGCTGC
CAAGAGTAAGCTTGAGAAGCAAGTGGAAGAACTCACGTGGAAACTGCAGCTAGAGAAACGCATG
AGGGTAAGTTAGTAAAGACTGTTTACCTATTATCCTTGCATTATTTCCATTCTTAAAGCTCTTC
TCTACTGGATTCAGATAATTAACATATCCGTCACTATTTCTCTGGCTTTAACGATTTAGACGGA
CATGGAAGAAAGTAAAACACAAGAAAATGCAAAACTACGATCAGCATTGGAGGAAATGCAACTT
CAATTCAAGGAAACCAAAGCCTTGCACTTACAGGAAGTGGAAGCTGCTAAAAAGATGGCAGAAA
CTGTTCCTGTGTTGCAGGAGGTTCCTGTAGTTGACACAGAGCTAGTGGAGAAGCTAACTAGTGA
AAATGAAAAGCTCAAGGTAGGAACTTAGCTCTCTTCTTTTCTTTTTTTTTTCTTTCTCTGCGTC
TATTAAGGATGTCAAAGCTGTGACATCTGAAGGAAGGTTTCACATTTCCTTTATTTCTCATTTG
GTTTCAGTCCCTGGTAAGTTCATTGGACCAGAAGATTGATGAAACAGAGAAAAAATTCGAGGAG
AGAAGCAAAATAAATGAGGAGAGACTGAAGCAGGCTATAGAGGCTGAAACTACCATTGTTAATT
TGAAAACTGCTGTGCACGAGTACCCACCATACATCTCTTGGTCTCTTAATGAATTCACCAAAGA
TCCCTTTGGCACTCAACATTAAGCGTATTTTTCACTTTTTCACTTGCAGACTTCAAGAAAAAAT
CTTAGATGTGGAATCTGAAAACAAAATATTGAGGCAGAAATCCCTCATCCAGGCATCAGGACAT
CTCCCTCCGACTCCAGTTAAGGTATATCTGAGCAAAATCATTTCTTGGATGGCTACACAATCAT
GATAATTAAAGTGTTACTCTCCTTCTTGTAGGGCTCACAAAATGGTCACTTTTCCAGCAAAGAA
AGTCCGTTCAATGTAAGTCCTGTCTTGCTTTTCCATCTCTTTTTCCCTAAATTATGTTCCATCT
GTTTGTATGTCTTTTAAATACATCTCTGCAGGGATCTGAGATTGAAACACTGGCAAGAACTCAA
GAACAAGAATCTGATGCAAAGACTCGGAGATATCATCTGGATCGTCAACGTGTATGGTTTTTAG
TTGAATTACTCCCTTCTAGCTTTTTCTGATCTGTCGGATGTGCCTTTTTTTATTTATTGAAGAG
AGATATTTTTCTTGCTATAGGAGAATATTGGTGCTCTTATCAACTGCGTAGTAAATAATATTGG
ATTCAACCAGGGGAAGCCTGTAGCTGCATTTACAATATACAAATGCCTCCTTCATTGGAAATCC
TTTGAAGCTGAAAGGACTAGTGTGTTTGATCGTCTTGTTCAAATGATTGGTTCTGCTATCAAG
						
					

			
		

Sequences
Splice junction sequence	ATTTACAATATACAAATGCCTCCTTCATTGGAAATCCTTTGAAGCTGAAAGGACTAGTGTGTTT GATCGTCTTGTTCAAATGATTGGTTCTGCTATCAAGagtcattgtcgcaaattcctggcccagt tgcactaccagaggctcaagaaagcagcaattacaacacaaagtgcatggagagcaaggttagc ccgtaaag
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	AGTCATTGTCGCAAATTCCTGGCCCAGTTGCACTACCAGAGGCTCAAGAAAGCAGCAATTACAA CACAAAGTGCATGGAGAGCAAGGTTAGCCCGTAAAGAACTGCGGAAGCTTAAGATGGTGAGCCT TCTCTTCACTTTGTGTGTATCCTCGTTCTCGTTTTAAGCATAGTATACTATATGGCAATTGCAA CAGTTCAGATAATGTTGGGTTTTAAATGAGCTTATATAATGGAAATATATGTCCTTACATAACG ATTGGCTGAGGTTTTAAAGTTGAGCTGGCTCTTTTGATGCAATTGCTAGAAGCTGGAAATTATC TTTGCCGTTTGAGGGTCTACGAAATTTAGGCAGAAGATGTTAGCTTTTCCCAAAATATGAATAA TTGCAACCATGACGCCTTCATATTTCGTGCAGGCTGCAAAGGAAACGGGAGTCCTTGAAGCTGC CAAGAGTAAGCTTGAGAAGCAAGTGGAAGAACTCACGTGGAAACTGCAGCTAGAGAAACGCATG AGGGTAAGTTAGTAAAGACTGTTTACCTATTATCCTTGCATTATTTCCATTCTTAAAGCTCTTC TCTACTGGATTCAGATAATTAACATATCCGTCACTATTTCTCTGGCTTTAACGATTTAGACGGA CATGGAAGAAAGTAAAACACAAGAAAATGCAAAACTACGATCAGCATTGGAGGAAATGCAACTT CAATTCAAGGAAACCAAAGCCTTGCACTTACAGGAAGTGGAAGCTGCTAAAAAGATGGCAGAAA CTGTTCCTGTGTTGCAGGAGGTTCCTGTAGTTGACACAGAGCTAGTGGAGAAGCTAACTAGTGA AAATGAAAAGCTCAAGGTAGGAACTTAGCTCTCTTCTTTTCTTTTTTTTTTCTTTCTCTGCGTC TATTAAGGATGTCAAAGCTGTGACATCTGAAGGAAGGTTTCACATTTCCTTTATTTCTCATTTG GTTTCAGTCCCTGGTAAGTTCATTGGACCAGAAGATTGATGAAACAGAGAAAAAATTCGAGGAG AGAAGCAAAATAAATGAGGAGAGACTGAAGCAGGCTATAGAGGCTGAAACTACCATTGTTAATT TGAAAACTGCTGTGCACGAGTACCCACCATACATCTCTTGGTCTCTTAATGAATTCACCAAAGA TCCCTTTGGCACTCAACATTAAGCGTATTTTTCACTTTTTCACTTGCAGACTTCAAGAAAAAAT CTTAGATGTGGAATCTGAAAACAAAATATTGAGGCAGAAATCCCTCATCCAGGCATCAGGACAT CTCCCTCCGACTCCAGTTAAGGTATATCTGAGCAAAATCATTTCTTGGATGGCTACACAATCAT GATAATTAAAGTGTTACTCTCCTTCTTGTAGGGCTCACAAAATGGTCACTTTTCCAGCAAAGAA AGTCCGTTCAATGTAAGTCCTGTCTTGCTTTTCCATCTCTTTTTCCCTAAATTATGTTCCATCT GTTTGTATGTCTTTTAAATACATCTCTGCAGGGATCTGAGATTGAAACACTGGCAAGAACTCAA GAACAAGAATCTGATGCAAAGACTCGGAGATATCATCTGGATCGTCAACGTGTATGGTTTTTAG TTGAATTACTCCCTTCTAGCTTTTTCTGATCTGTCGGATGTGCCTTTTTTTATTTATTGAAGAG AGATATTTTTCTTGCTATAGGAGAATATTGGTGCTCTTATCAACTGCGTAGTAAATAATATTGG ATTCAACCAGGGGAAGCCTGTAGCTGCATTTACAATATACAAATGCCTCCTTCATTGGAAATCC TTTGAAGCTGAAAGGACTAGTGTGTTTGATCGTCTTGTTCAAATGATTGGTTCTGCTATCAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.241783601

Conservation Information
Conserved circRNAs	NA
PMCS	0.241783601

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							14177992-14179726(+)
						
						Potential amino acid sequence
						
							MAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSALEEMQLQFKETKA
LHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKIDETEKKFEERSKI
NEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLPPTPVKGSQNGHF
SSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGFNQGKPVAAFTIY
KCLLHWKSFEAERTSVFDRLVQMIGSAIKSHCRKFLAQLHYQRLKKAAITTQSAWRARLARKEL
RKLKMAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSALEEMQLQFK
ETKALHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKIDETEKKFEE
RSKINEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLPPTPVKGSQ
NGHFSSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGFNQGKPVAA
FTIYKCLLHWKSFEAERTSVFDRLVQMIGSAIKSHCRKFLAQLHYQRLKKAAITTQSAWRARLA
RKELRKLKMAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSALEEMQ
LQFKETKALHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKIDETEK
KFEERSKINEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLPPTPV
KGSQNGHFSSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGFNQGK
PVAAFTIYKCLLHWKSFEAERTSVFDRLVQMIGSAIKSHCRKFLAQLHYQRLKKAAITTQSAWR
ARLARKELRKLKMAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSAL
EEMQLQFKETKALHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKID
ETEKKFEERSKINEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLP
PTPVKGSQNGHFSSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGF
NQGKPVAAFTIYKCLLHWKSFEAERTSVFDRLVQMIGSAIK(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	14177992-14179726(+)
Potential amino acid sequence	MAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSALEEMQLQFKETKA LHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKIDETEKKFEERSKI NEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLPPTPVKGSQNGHF SSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGFNQGKPVAAFTIY KCLLHWKSFEAERTSVFDRLVQMIGSAIKSHCRKFLAQLHYQRLKKAAITTQSAWRARLARKEL RKLKMAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSALEEMQLQFK ETKALHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKIDETEKKFEE RSKINEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLPPTPVKGSQ NGHFSSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGFNQGKPVAA FTIYKCLLHWKSFEAERTSVFDRLVQMIGSAIKSHCRKFLAQLHYQRLKKAAITTQSAWRARLA RKELRKLKMAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSALEEMQ LQFKETKALHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKIDETEK KFEERSKINEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLPPTPV KGSQNGHFSSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGFNQGK PVAAFTIYKCLLHWKSFEAERTSVFDRLVQMIGSAIKSHCRKFLAQLHYQRLKKAAITTQSAWR ARLARKELRKLKMAAKETGVLEAAKSKLEKQVEELTWKLQLEKRMRTDMEESKTQENAKLRSAL EEMQLQFKETKALHLQEVEAAKKMAETVPVLQEVPVVDTELVEKLTSENEKLKSLVSSLDQKID ETEKKFEERSKINEERLKQAIEAETTIVNLKTAVHELQEKILDVESENKILRQKSLIQASGHLP PTPVKGSQNGHFSSKESPFNGSEIETLARTQEQESDAKTRRYHLDRQRENIGALINCVVNNIGF NQGKPVAAFTIYKCLLHWKSFEAERTSVFDRLVQMIGSAIK(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017

circRNA

Detail information of AT4G28710_circ_g.5

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