Plant Circular RNA Database

Detail information of AT1G21730_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G21730_circ_g.5
					
						ID in PlantcircBase
						ath_circ_003830
					
						Alias
						Ath_circ_FC0472
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 7633328-7634698  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer
					
						Parent gene
						
							AT1G21730						
					
						Parent gene annotation
						
							Kinesin-like protein KIN-7C, mitochondrial
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT1G21730_circ_g.4 AT1G21730_circ_g.6 						
					
						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
						AT1G21730.1:5

General Information
CircRNA Name	AT1G21730_circ_g.5
ID in PlantcircBase	ath_circ_003830
Alias	Ath_circ_FC0472
Organism	Arabidpsis thaliana
Position	chr1: 7633328-7634698 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer
Parent gene	AT1G21730
Parent gene annotation	Kinesin-like protein KIN-7C, mitochondrial
Parent gene strand	+
Alternative splicing	AT1G21730_circ_g.4 AT1G21730_circ_g.6
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	AT1G21730.1:5

			
						 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  
						
							AACTAGAAGAGAAAATGCAGCGGCTATTAAGTCTATTCCGGAAAAAACTGTTGCTGGAGACTTG
TTCAGTGCTACTGTTGGACCAGAAGACTCGTCTCCGcttatttgcactatcacacctgcatcca
gcacaagtgaagagacgcacaacacactgaaattcgctcagaggtgcaagcatgttgaaatcaa
agcttcac

									
								

					

						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: 759
Transcript exons: 7633328-7633435,7633516-7633632,7633879-7634043,7634174-
7634344,7634501-7634698
CTTATTTGCACTATCACACCTGCATCCAGCACAAGTGAAGAGACGCACAACACACTGAAATTCG
CTCAGAGGTGCAAGCATGTTGAAATCAAAGCTTCACGAAATAAGATTATGGATGAGAAGTCCCT
TATAAAAAAGTATCAGAAAGAAATATCGTGTTTACAAGAAGAACTTACGCAATTGAGGCACGGA
AACCAAGATGATTTGGCTGATCGAAAACTTCAGGTTAAACTTCAGTCAAGGTTGGAGGATGATG
AAGAAGCCAAAGCAGCTCTGATGGGAAGAATTCAGCGATTGACAAAGTTAATCTTGGTTTCAAC
AAAAAGTTCACTCCAAGCTGCTTCTGTAAAACCTGACCATATATGGAGGCAAGCTTTTGGAGAG
GATGAGCTAGCATACTTGCCCGATAGAAGACGGGAGAACATGGCTGATGATGGTGCTGTAAGCA
CAGTTTCTGAACATTTAAAGGAGCCAAGAGATGGCAATAGTAGTCTGGACGAGATGACAAAGGA
CAGGAGAAAGAACAAGACTCGTGGAATGCTTGGCTGGCTAAAACTGAAAAAATCTGATGGTGTG
GCCGGGACATTGCCGACTGATGGTAACCAGAGCCAAGCAAGTGGATCTCCTTCATCTTCCTCCA
AGTATACACAAACAAAAACAACTAGAAGAGAAAATGCAGCGGCTATTAAGTCTATTCCGGAAAA
AACTGTTGCTGGAGACTTGTTCAGTGCTACTGTTGGACCAGAAGACTCGTCTCCG
						
					

						Genomic sequence
						
							CTTATTTGCACTATCACACCTGCATCCAGCACAAGTGAAGAGACGCACAACACACTGAAATTCG
CTCAGAGGTGCAAGCATGTTGAAATCAAAGCTTCACGAAATAAGGTGCATTTATGTATCTATGT
CTCTGAAGTTCCTTAGATTCATTAGAGCTGTCTTCCTGATATTTCTAATTTTTTATATAGATTA
TGGATGAGAAGTCCCTTATAAAAAAGTATCAGAAAGAAATATCGTGTTTACAAGAAGAACTTAC
GCAATTGAGGCACGGAAACCAAGATGATTTGGCTGATCGAAAACTTCAGGTTGGTGTATGCAGA
TAGTTCCTTCTTTTCTTGTTGTTGCGGCCAGATATTACAAAACTCTGATGACAATGTCTTTAGC
TATTAGGCTATTACTAGCTAAACATTTGAAATGATTAATCTTTAATCAAATTTTACCTTTTAGA
ATATGTTGGTTATATCTGTGAATTTAAAAAATGCATTCCCCAGAAATAACATGCCTTGCTTTCA
TTGTGCTCTCTCTCATTTTAGAAGCTGAAATCGTGTCAGGTTAAACTTCAGTCAAGGTTGGAGG
ATGATGAAGAAGCCAAAGCAGCTCTGATGGGAAGAATTCAGCGATTGACAAAGTTAATCTTGGT
TTCAACAAAAAGTTCACTCCAAGCTGCTTCTGTAAAACCTGACCATATATGGAGGCAAGCTTTT
GGAGAGGATGAGGTATGCATGTTAAATTAACGTTGTTTGCAAGACATCATTCCATTTTGGTGGA
ACAATAATATTTCTGTTTCAGCGTTTACAATTACACCATTTGATATTGATGTATAATTTAACAT
TATGGTTCCTACAGCTAGCATACTTGCCCGATAGAAGACGGGAGAACATGGCTGATGATGGTGC
TGTAAGCACAGTTTCTGAACATTTAAAGGAGCCAAGAGATGGCAATAGTAGTCTGGACGAGATG
ACAAAGGACAGGAGAAAGAACAAGACTCGTGGAATGCTTGGCTGGCTAAAACTGAAAGTAAGTT
CTAATCTTCGTTGATCCCTCTGTTGTATCGATATTTATAGATGGAGTTAGTCATTGTGTTCTGA
TATATAAAAATGACACAATCCAAAAACATAAAGAGTGATTAGACTGTTTCGGCATTAGACATGA
CCCATAATGTATATGCTGCAGAAATCTGATGGTGTGGCCGGGACATTGCCGACTGATGGTAACC
AGAGCCAAGCAAGTGGATCTCCTTCATCTTCCTCCAAGTATACACAAACAAAAACAACTAGAAG
AGAAAATGCAGCGGCTATTAAGTCTATTCCGGAAAAAACTGTTGCTGGAGACTTGTTCAGTGCT
ACTGTTGGACCAGAAGACTCGTCTCCG
						
					

			
		

Sequences
Splice junction sequence	AACTAGAAGAGAAAATGCAGCGGCTATTAAGTCTATTCCGGAAAAAACTGTTGCTGGAGACTTG TTCAGTGCTACTGTTGGACCAGAAGACTCGTCTCCGcttatttgcactatcacacctgcatcca gcacaagtgaagagacgcacaacacactgaaattcgctcagaggtgcaagcatgttgaaatcaa agcttcac
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: 759 Transcript exons: 7633328-7633435,7633516-7633632,7633879-7634043,7634174- 7634344,7634501-7634698 CTTATTTGCACTATCACACCTGCATCCAGCACAAGTGAAGAGACGCACAACACACTGAAATTCG CTCAGAGGTGCAAGCATGTTGAAATCAAAGCTTCACGAAATAAGATTATGGATGAGAAGTCCCT TATAAAAAAGTATCAGAAAGAAATATCGTGTTTACAAGAAGAACTTACGCAATTGAGGCACGGA AACCAAGATGATTTGGCTGATCGAAAACTTCAGGTTAAACTTCAGTCAAGGTTGGAGGATGATG AAGAAGCCAAAGCAGCTCTGATGGGAAGAATTCAGCGATTGACAAAGTTAATCTTGGTTTCAAC AAAAAGTTCACTCCAAGCTGCTTCTGTAAAACCTGACCATATATGGAGGCAAGCTTTTGGAGAG GATGAGCTAGCATACTTGCCCGATAGAAGACGGGAGAACATGGCTGATGATGGTGCTGTAAGCA CAGTTTCTGAACATTTAAAGGAGCCAAGAGATGGCAATAGTAGTCTGGACGAGATGACAAAGGA CAGGAGAAAGAACAAGACTCGTGGAATGCTTGGCTGGCTAAAACTGAAAAAATCTGATGGTGTG GCCGGGACATTGCCGACTGATGGTAACCAGAGCCAAGCAAGTGGATCTCCTTCATCTTCCTCCA AGTATACACAAACAAAAACAACTAGAAGAGAAAATGCAGCGGCTATTAAGTCTATTCCGGAAAA AACTGTTGCTGGAGACTTGTTCAGTGCTACTGTTGGACCAGAAGACTCGTCTCCG
Genomic sequence	CTTATTTGCACTATCACACCTGCATCCAGCACAAGTGAAGAGACGCACAACACACTGAAATTCG CTCAGAGGTGCAAGCATGTTGAAATCAAAGCTTCACGAAATAAGGTGCATTTATGTATCTATGT CTCTGAAGTTCCTTAGATTCATTAGAGCTGTCTTCCTGATATTTCTAATTTTTTATATAGATTA TGGATGAGAAGTCCCTTATAAAAAAGTATCAGAAAGAAATATCGTGTTTACAAGAAGAACTTAC GCAATTGAGGCACGGAAACCAAGATGATTTGGCTGATCGAAAACTTCAGGTTGGTGTATGCAGA TAGTTCCTTCTTTTCTTGTTGTTGCGGCCAGATATTACAAAACTCTGATGACAATGTCTTTAGC TATTAGGCTATTACTAGCTAAACATTTGAAATGATTAATCTTTAATCAAATTTTACCTTTTAGA ATATGTTGGTTATATCTGTGAATTTAAAAAATGCATTCCCCAGAAATAACATGCCTTGCTTTCA TTGTGCTCTCTCTCATTTTAGAAGCTGAAATCGTGTCAGGTTAAACTTCAGTCAAGGTTGGAGG ATGATGAAGAAGCCAAAGCAGCTCTGATGGGAAGAATTCAGCGATTGACAAAGTTAATCTTGGT TTCAACAAAAAGTTCACTCCAAGCTGCTTCTGTAAAACCTGACCATATATGGAGGCAAGCTTTT GGAGAGGATGAGGTATGCATGTTAAATTAACGTTGTTTGCAAGACATCATTCCATTTTGGTGGA ACAATAATATTTCTGTTTCAGCGTTTACAATTACACCATTTGATATTGATGTATAATTTAACAT TATGGTTCCTACAGCTAGCATACTTGCCCGATAGAAGACGGGAGAACATGGCTGATGATGGTGC TGTAAGCACAGTTTCTGAACATTTAAAGGAGCCAAGAGATGGCAATAGTAGTCTGGACGAGATG ACAAAGGACAGGAGAAAGAACAAGACTCGTGGAATGCTTGGCTGGCTAAAACTGAAAGTAAGTT CTAATCTTCGTTGATCCCTCTGTTGTATCGATATTTATAGATGGAGTTAGTCATTGTGTTCTGA TATATAAAAATGACACAATCCAAAAACATAAAGAGTGATTAGACTGTTTCGGCATTAGACATGA CCCATAATGTATATGCTGCAGAAATCTGATGGTGTGGCCGGGACATTGCCGACTGATGGTAACC AGAGCCAAGCAAGTGGATCTCCTTCATCTTCCTCCAAGTATACACAAACAAAAACAACTAGAAG AGAAAATGCAGCGGCTATTAAGTCTATTCCGGAAAAAACTGTTGCTGGAGACTTGTTCAGTGCT ACTGTTGGACCAGAAGACTCGTCTCCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.334601834

Conservation Information
Conserved circRNAs	NA
PMCS	0.334601834

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							7633519-7634695(+)
						
						Potential amino acid sequence
						
							MDEKSLIKKYQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTK
LILVSTKSSLQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSL
DEMTKDRRKNKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAI
KSIPEKTVAGDLFSATVGPEDSSPLICTITPASSTSEETHNTLKFAQRCKHVEIKASRNKIMDE
KSLIKKYQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTKLIL
VSTKSSLQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSLDEM
TKDRRKNKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAIKSI
PEKTVAGDLFSATVGPEDSSPLICTITPASSTSEETHNTLKFAQRCKHVEIKASRNKIMDEKSL
IKKYQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTKLILVST
KSSLQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSLDEMTKD
RRKNKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAIKSIPEK
TVAGDLFSATVGPEDSSPLICTITPASSTSEETHNTLKFAQRCKHVEIKASRNKIMDEKSLIKK
YQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTKLILVSTKSS
LQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSLDEMTKDRRK
NKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAIKSIPEKTVA
GDLFSATVGPEDSSP(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	7633519-7634695(+)
Potential amino acid sequence	MDEKSLIKKYQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTK LILVSTKSSLQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSL DEMTKDRRKNKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAI KSIPEKTVAGDLFSATVGPEDSSPLICTITPASSTSEETHNTLKFAQRCKHVEIKASRNKIMDE KSLIKKYQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTKLIL VSTKSSLQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSLDEM TKDRRKNKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAIKSI PEKTVAGDLFSATVGPEDSSPLICTITPASSTSEETHNTLKFAQRCKHVEIKASRNKIMDEKSL IKKYQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTKLILVST KSSLQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSLDEMTKD RRKNKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAIKSIPEK TVAGDLFSATVGPEDSSPLICTITPASSTSEETHNTLKFAQRCKHVEIKASRNKIMDEKSLIKK YQKEISCLQEELTQLRHGNQDDLADRKLQVKLQSRLEDDEEAKAALMGRIQRLTKLILVSTKSS LQAASVKPDHIWRQAFGEDELAYLPDRRRENMADDGAVSTVSEHLKEPRDGNSSLDEMTKDRRK NKTRGMLGWLKLKKSDGVAGTLPTDGNQSQASGSPSSSSKYTQTKTTRRENAAAIKSIPEKTVA GDLFSATVGPEDSSP(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chu et al., 2017;Chen et al., 2017a

circRNA

Detail information of AT1G21730_circ_g.5

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