Plant Circular RNA Database

Detail information of AT5G27970_circ_g.18

			
						 General Information
					
						CircRNA Name
						AT5G27970_circ_g.18
					
						ID in PlantcircBase
						ath_circ_040863
					
						Alias
						At_ciR3272
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 10012115-10013178  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder, find_circ
					
						Parent gene
						
							AT5G27970						
					
						Parent gene annotation
						
							ARM repeat superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G27970_circ_g.3 AT5G27970_circ_g.4 AT5G27970_circ_g.5 AT5G27970_circ_g.6 AT5G27970_circ_g.7 AT5G27970_circ_g.8 AT5G27970_circ_g.9 AT5G27970_circ_g.10 AT5G27970_circ_g.11 AT5G27970_circ_g.12 AT5G27970_circ_g.13 AT5G27970_circ_g.14 AT5G27970_circ_g.15 AT5G27970_circ_g.16 AT5G27970_circ_g.17 AT5G27970_circ_g.19 AT5G27970_circ_g.20 						
					
						Support reads
						2/2
					
						Tissues
						leaf/whole_plant
					
						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
						AT5G27970.2:5
AT5G27970.1:5
AT5G27970.4:5
AT5G27970.3:5
AT5G27970.5:5

General Information
CircRNA Name	AT5G27970_circ_g.18
ID in PlantcircBase	ath_circ_040863
Alias	At_ciR3272
Organism	Arabidpsis thaliana
Position	chr5: 10012115-10013178 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder, find_circ
Parent gene	AT5G27970
Parent gene annotation	ARM repeat superfamily protein
Parent gene strand	+
Alternative splicing	AT5G27970_circ_g.3 AT5G27970_circ_g.4 AT5G27970_circ_g.5 AT5G27970_circ_g.6 AT5G27970_circ_g.7 AT5G27970_circ_g.8 AT5G27970_circ_g.9 AT5G27970_circ_g.10 AT5G27970_circ_g.11 AT5G27970_circ_g.12 AT5G27970_circ_g.13 AT5G27970_circ_g.14 AT5G27970_circ_g.15 AT5G27970_circ_g.16 AT5G27970_circ_g.17 AT5G27970_circ_g.19 AT5G27970_circ_g.20
Support reads	2/2
Tissues	leaf/whole_plant
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	AT5G27970.2:5 AT5G27970.1:5 AT5G27970.4:5 AT5G27970.3:5 AT5G27970.5:5

			
						 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  
						
							GAAGATGTTTGATGATAAAATGTACATGCAATTGTTGGGAATTGTTGATTTGGCTATAAAACAG
GCCATCATAAATAGCGAAAATTTCGAAACTGAATATgctgcaacatcatcgaaggacgaatggc
aagggaaagaaatcggtactcgaggagggaaagctgtgcacatgcttatacatcataggtgaca
aaaaaaat

									
								

					

						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: 561
Transcript exons: 10012115-10012200,10012348-10012463,10012552-10012664,10
012760-10012883,10013057-10013178
GCTGCAACATCATCGAAGGACGAATGGCAAGGGAAAGAAATCGGTACTCGAGGAGGGAAAGCTG
TGCACATGCTTATACATCATAGTCGCAATTCAGCCCAGAAGCAGTGGGATGAAACATTTGTACT
TGTCCTTGGAGGAATAGCCCGCCTCTTCCGGTCCTACTTTCCTCTTCTTGAAAGCTTACCTAAC
TTCTGGTCAGGATGGGAGTCTTTGCTTGCTTTTGTTAAGAAAAGCATTTTCAATGGGAGTAAAG
AGGTATCACTTGCAGCGATAAATTGTCTGCAGACAGCTGTTGTGTCCCACTGTGTCAAGGGAAA
CTTGCAACTTCGATATCTTAATTCGGTACTGGACGTGTATGAGCTTGTTTTCCAGAAGTCATCG
AGTTACACAGGTGACACAGCAGCCAAGGTGAAACAAGAGATTCTGCATGGTTTAGGTGAATTAT
ATGTGCAATCATCGAAGATGTTTGATGATAAAATGTACATGCAATTGTTGGGAATTGTTGATTT
GGCTATAAAACAGGCCATCATAAATAGCGAAAATTTCGAAACTGAATAT
						
					

						Genomic sequence
						
							GCTGCAACATCATCGAAGGACGAATGGCAAGGGAAAGAAATCGGTACTCGAGGAGGGAAAGCTG
TGCACATGCTTATACATCATAGGTGACAAAAAAAATTTCGTCGTGTGGATATCTTCTGCATTGT
CAATCTCTTTGTGATAGTCTTTGATGCCTGAATAACTCGTTTACATCAAAAGATTTTTACTAAT
TTTCCTACCATTGAACTTGCCATCCATTTTCTGATATGCAGTCGCAATTCAGCCCAGAAGCAGT
GGGATGAAACATTTGTACTTGTCCTTGGAGGAATAGCCCGCCTCTTCCGGTCCTACTTTCCTCT
TCTTGAAAGCTTACCTAACTTCTGGTCAGGTGAGTGAATTGTAATAATCCTTGACTGCCCTGCA
GTGCTTATTGTTTAGGAGAAACTGAAATATCGTGAAACTTTCTGCTTCTGTAGGATGGGAGTCT
TTGCTTGCTTTTGTTAAGAAAAGCATTTTCAATGGGAGTAAAGAGGTATCACTTGCAGCGATAA
ATTGTCTGCAGACAGCTGTTGTGTCCCACTGTGTCAAGGTAACAACGCAGCTATTTGAACAATC
TATGAGCTACAATGTACACTGTCATATCCATATTTCACTCTCTTAACTTTTTTTTTTTTTATGA
ACTAGGGAAACTTGCAACTTCGATATCTTAATTCGGTACTGGACGTGTATGAGCTTGTTTTCCA
GAAGTCATCGAGTTACACAGGTGACACAGCAGCCAAGGTGAAACAAGAGATTCTGCATGGTTTA
GGTATTTCAATTTTCAGTAAAGTCTCTACATTTTCGTAGTCTTTTTTGCTGACTCAGATAAAAA
AATTCAGTGAATAGAAAAGGCTTTTAAAGTGTTCTCTTTAGCGTGACATAATTTTTGCAACATT
TGGTTCTTACTCTTTCCTTTTTTTTTCTCGTTTAATGTTTTTACAGGTGAATTATATGTGCAAT
CATCGAAGATGTTTGATGATAAAATGTACATGCAATTGTTGGGAATTGTTGATTTGGCTATAAA
ACAGGCCATCATAAATAGCGAAAATTTCGAAACTGAATAT
						
					

			
		

Sequences
Splice junction sequence	GAAGATGTTTGATGATAAAATGTACATGCAATTGTTGGGAATTGTTGATTTGGCTATAAAACAG GCCATCATAAATAGCGAAAATTTCGAAACTGAATATgctgcaacatcatcgaaggacgaatggc aagggaaagaaatcggtactcgaggagggaaagctgtgcacatgcttatacatcataggtgaca aaaaaaat
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: 561 Transcript exons: 10012115-10012200,10012348-10012463,10012552-10012664,10 012760-10012883,10013057-10013178 GCTGCAACATCATCGAAGGACGAATGGCAAGGGAAAGAAATCGGTACTCGAGGAGGGAAAGCTG TGCACATGCTTATACATCATAGTCGCAATTCAGCCCAGAAGCAGTGGGATGAAACATTTGTACT TGTCCTTGGAGGAATAGCCCGCCTCTTCCGGTCCTACTTTCCTCTTCTTGAAAGCTTACCTAAC TTCTGGTCAGGATGGGAGTCTTTGCTTGCTTTTGTTAAGAAAAGCATTTTCAATGGGAGTAAAG AGGTATCACTTGCAGCGATAAATTGTCTGCAGACAGCTGTTGTGTCCCACTGTGTCAAGGGAAA CTTGCAACTTCGATATCTTAATTCGGTACTGGACGTGTATGAGCTTGTTTTCCAGAAGTCATCG AGTTACACAGGTGACACAGCAGCCAAGGTGAAACAAGAGATTCTGCATGGTTTAGGTGAATTAT ATGTGCAATCATCGAAGATGTTTGATGATAAAATGTACATGCAATTGTTGGGAATTGTTGATTT GGCTATAAAACAGGCCATCATAAATAGCGAAAATTTCGAAACTGAATAT
Genomic sequence	GCTGCAACATCATCGAAGGACGAATGGCAAGGGAAAGAAATCGGTACTCGAGGAGGGAAAGCTG TGCACATGCTTATACATCATAGGTGACAAAAAAAATTTCGTCGTGTGGATATCTTCTGCATTGT CAATCTCTTTGTGATAGTCTTTGATGCCTGAATAACTCGTTTACATCAAAAGATTTTTACTAAT TTTCCTACCATTGAACTTGCCATCCATTTTCTGATATGCAGTCGCAATTCAGCCCAGAAGCAGT GGGATGAAACATTTGTACTTGTCCTTGGAGGAATAGCCCGCCTCTTCCGGTCCTACTTTCCTCT TCTTGAAAGCTTACCTAACTTCTGGTCAGGTGAGTGAATTGTAATAATCCTTGACTGCCCTGCA GTGCTTATTGTTTAGGAGAAACTGAAATATCGTGAAACTTTCTGCTTCTGTAGGATGGGAGTCT TTGCTTGCTTTTGTTAAGAAAAGCATTTTCAATGGGAGTAAAGAGGTATCACTTGCAGCGATAA ATTGTCTGCAGACAGCTGTTGTGTCCCACTGTGTCAAGGTAACAACGCAGCTATTTGAACAATC TATGAGCTACAATGTACACTGTCATATCCATATTTCACTCTCTTAACTTTTTTTTTTTTTATGA ACTAGGGAAACTTGCAACTTCGATATCTTAATTCGGTACTGGACGTGTATGAGCTTGTTTTCCA GAAGTCATCGAGTTACACAGGTGACACAGCAGCCAAGGTGAAACAAGAGATTCTGCATGGTTTA GGTATTTCAATTTTCAGTAAAGTCTCTACATTTTCGTAGTCTTTTTTGCTGACTCAGATAAAAA AATTCAGTGAATAGAAAAGGCTTTTAAAGTGTTCTCTTTAGCGTGACATAATTTTTGCAACATT TGGTTCTTACTCTTTCCTTTTTTTTTCTCGTTTAATGTTTTTACAGGTGAATTATATGTGCAAT CATCGAAGATGTTTGATGATAAAATGTACATGCAATTGTTGGGAATTGTTGATTTGGCTATAAA ACAGGCCATCATAAATAGCGAAAATTTCGAAACTGAATAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.235598611

Conservation Information
Conserved circRNAs	NA
PMCS	0.235598611

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							10012184-10013175(+)
						
						Potential amino acid sequence
						
							MLIHHSRNSAQKQWDETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEV
SLAAINCLQTAVVSHCVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYV
QSSKMFDDKMYMQLLGIVDLAIKQAIINSENFETEYAATSSKDEWQGKEIGTRGGKAVHMLIHH
SRNSAQKQWDETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEVSLAAI
NCLQTAVVSHCVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYVQSSKM
FDDKMYMQLLGIVDLAIKQAIINSENFETEYAATSSKDEWQGKEIGTRGGKAVHMLIHHSRNSA
QKQWDETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEVSLAAINCLQT
AVVSHCVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYVQSSKMFDDKM
YMQLLGIVDLAIKQAIINSENFETEYAATSSKDEWQGKEIGTRGGKAVHMLIHHSRNSAQKQWD
ETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEVSLAAINCLQTAVVSH
CVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYVQSSKMFDDKMYMQLL
GIVDLAIKQAIINSENFETEY(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	10012184-10013175(+)
Potential amino acid sequence	MLIHHSRNSAQKQWDETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEV SLAAINCLQTAVVSHCVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYV QSSKMFDDKMYMQLLGIVDLAIKQAIINSENFETEYAATSSKDEWQGKEIGTRGGKAVHMLIHH SRNSAQKQWDETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEVSLAAI NCLQTAVVSHCVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYVQSSKM FDDKMYMQLLGIVDLAIKQAIINSENFETEYAATSSKDEWQGKEIGTRGGKAVHMLIHHSRNSA QKQWDETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEVSLAAINCLQT AVVSHCVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYVQSSKMFDDKM YMQLLGIVDLAIKQAIINSENFETEYAATSSKDEWQGKEIGTRGGKAVHMLIHHSRNSAQKQWD ETFVLVLGGIARLFRSYFPLLESLPNFWSGWESLLAFVKKSIFNGSKEVSLAAINCLQTAVVSH CVKGNLQLRYLNSVLDVYELVFQKSSSYTGDTAAKVKQEILHGLGELYVQSSKMFDDKMYMQLL GIVDLAIKQAIINSENFETEY(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017

circRNA

Detail information of AT5G27970_circ_g.18

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