Plant Circular RNA Database

Detail information of AT1G63770_circ_g.16

			
						 General Information
					
						CircRNA Name
						AT1G63770_circ_g.16
					
						ID in PlantcircBase
						ath_circ_008551
					
						Alias
						At_ciR1490
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 23663029-23663554  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						PcircRNA_finder, circRNA_finder, find_circ
					
						Parent gene
						
							AT1G63770						
					
						Parent gene annotation
						
							Peptidase M1 family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G63770_circ_g.12 AT1G63770_circ_g.13 AT1G63770_circ_g.14 AT1G63770_circ_g.15 AT1G63770_circ_g.17 AT1G63770_circ_g.18 AT1G63770_circ_g.19 						
					
						Support reads
						9/11
					
						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  
						
							CT-AC							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
						AT1G63770.7:3
AT1G63770.4:3
AT1G63770.3:3
AT1G63770.6:3
AT1G63770.2:3
AT1G63770.1:3
AT1G63770.5:3

General Information
CircRNA Name	AT1G63770_circ_g.16
ID in PlantcircBase	ath_circ_008551
Alias	At_ciR1490
Organism	Arabidpsis thaliana
Position	chr1: 23663029-23663554 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	PcircRNA_finder, circRNA_finder, find_circ
Parent gene	AT1G63770
Parent gene annotation	Peptidase M1 family protein
Parent gene strand	-
Alternative splicing	AT1G63770_circ_g.12 AT1G63770_circ_g.13 AT1G63770_circ_g.14 AT1G63770_circ_g.15 AT1G63770_circ_g.17 AT1G63770_circ_g.18 AT1G63770_circ_g.19
Support reads	9/11
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	CT-AC 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	AT1G63770.7:3 AT1G63770.4:3 AT1G63770.3:3 AT1G63770.6:3 AT1G63770.2:3 AT1G63770.1:3 AT1G63770.5:3

			
						 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  
						
							ATATTTCTTTAGGTGCATCCATTTTGGAATCTTCAGCTTTATCCGGAACTGATTCTGTGGCAAC
AGAACAAATGAGCCTCCTGCTGTTTTGCTTATGTGTcttaagaagcttcccctcaaccttgaca
gaaagtagcttcaagtcatgtccatccaagaccaatgcagcagaagatcctggccaacatgata
cttgttca

						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: 294
Transcript exons: 23663029-23663105,23663251-23663326,23663414-23663554
CTTAAGAAGCTTCCCCTCAACCTTGACAGAAAGTAGCTTCAAGTCATGTCCATCCAAGACCAAT
GCAGCAGAAGATCCTTTAACTCGAGGAGAAACCTTGATTTTAGAGCTAACAATTGTTTTCTCTT
CACCTAGAGAGAAGCTCAGATCCACAGTTTCAAAGTAGTAATCAGGCTTTGTGTAGTTCTTGAG
AAATATTTCTTTAGGTGCATCCATTTTGGAATCTTCAGCTTTATCCGGAACTGATTCTGTGGCA
ACAGAACAAATGAGCCTCCTGCTGTTTTGCTTATGTGT
						
						Genomic sequence
						
							CTTAAGAAGCTTCCCCTCAACCTTGACAGAAAGTAGCTTCAAGTCATGTCCATCCAAGACCAAT
GCAGCAGAAGATCCTGGCCAACATGATACTTGTTCAGATGTGATGTGAGAAAAAAAGAAGCAAA
AATCCATCTTAAAGCTATGCAAACAGCTCATGCAAAAGAAAAATAAACTTGTATGTTCAGCTTA
AAGAAACAGCAAAGTACTAGACTGTTGTACCTTTAACTCGAGGAGAAACCTTGATTTTAGAGCT
AACAATTGTTTTCTCTTCACCTAGAGAGAAGCTCAGATCCACCTAAACAAACAAACAAAAAAGC
TTCAAATAACAACAAAATGATTCTAGTCATATACTCAATTTGGAATTAAAAGAAAGCTAGCATA
CAGTTTCAAAGTAGTAATCAGGCTTTGTGTAGTTCTTGAGAAATATTTCTTTAGGTGCATCCAT
TTTGGAATCTTCAGCTTTATCCGGAACTGATTCTGTGGCAACAGAACAAATGAGCCTCCTGCTG
TTTTGCTTATGTGT

Sequences
Splice junction sequence	ATATTTCTTTAGGTGCATCCATTTTGGAATCTTCAGCTTTATCCGGAACTGATTCTGTGGCAAC AGAACAAATGAGCCTCCTGCTGTTTTGCTTATGTGTcttaagaagcttcccctcaaccttgaca gaaagtagcttcaagtcatgtccatccaagaccaatgcagcagaagatcctggccaacatgata cttgttca
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: 294 Transcript exons: 23663029-23663105,23663251-23663326,23663414-23663554 CTTAAGAAGCTTCCCCTCAACCTTGACAGAAAGTAGCTTCAAGTCATGTCCATCCAAGACCAAT GCAGCAGAAGATCCTTTAACTCGAGGAGAAACCTTGATTTTAGAGCTAACAATTGTTTTCTCTT CACCTAGAGAGAAGCTCAGATCCACAGTTTCAAAGTAGTAATCAGGCTTTGTGTAGTTCTTGAG AAATATTTCTTTAGGTGCATCCATTTTGGAATCTTCAGCTTTATCCGGAACTGATTCTGTGGCA ACAGAACAAATGAGCCTCCTGCTGTTTTGCTTATGTGT
Genomic sequence	CTTAAGAAGCTTCCCCTCAACCTTGACAGAAAGTAGCTTCAAGTCATGTCCATCCAAGACCAAT GCAGCAGAAGATCCTGGCCAACATGATACTTGTTCAGATGTGATGTGAGAAAAAAAGAAGCAAA AATCCATCTTAAAGCTATGCAAACAGCTCATGCAAAAGAAAAATAAACTTGTATGTTCAGCTTA AAGAAACAGCAAAGTACTAGACTGTTGTACCTTTAACTCGAGGAGAAACCTTGATTTTAGAGCT AACAATTGTTTTCTCTTCACCTAGAGAGAAGCTCAGATCCACCTAAACAAACAAACAAAAAAGC TTCAAATAACAACAAAATGATTCTAGTCATATACTCAATTTGGAATTAAAAGAAAGCTAGCATA CAGTTTCAAAGTAGTAATCAGGCTTTGTGTAGTTCTTGAGAAATATTTCTTTAGGTGCATCCAT TTTGGAATCTTCAGCTTTATCCGGAACTGATTCTGTGGCAACAGAACAAATGAGCCTCCTGCTG TTTTGCTTATGTGT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.261564573

Conservation Information
Conserved circRNAs	NA
PMCS	0.261564573

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							23663477-23663031(-)
						
						Potential amino acid sequence
						
							MDAPKEIFLKNYTKPDYYFETVDLSFSLGEEKTIVSSKIKVSPRVKGSSAALVLDGHDLKLLSV
KVEGKLLKTHKQNSRRLICSVATESVPDKAEDSKMDAPKEIFLKNYTKPDYYFETVDLSFSLGE
EKTIVSSKIKVSPRVKGSSAALVLDGHDLKLLSVKVEGKLLKTHKQNSRRLICSVATESVPDKA
EDSKMDAPKEIFLKNYTKPDYYFETVDLSFSLGEEKTIVSSKIKVSPRVKGSSAALVLDGHDLK
LLSVKVEGKLLKTHKQNSRRLICSVATESVPDKAEDSKMDAPKEIFLKNYTKPDYYFETVDLSF
SLGEEKTIVSSKIKVSPRVKGSSAALVLDGHDLKLLSVKVEGKLLK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	23663477-23663031(-)
Potential amino acid sequence	MDAPKEIFLKNYTKPDYYFETVDLSFSLGEEKTIVSSKIKVSPRVKGSSAALVLDGHDLKLLSV KVEGKLLKTHKQNSRRLICSVATESVPDKAEDSKMDAPKEIFLKNYTKPDYYFETVDLSFSLGE EKTIVSSKIKVSPRVKGSSAALVLDGHDLKLLSVKVEGKLLKTHKQNSRRLICSVATESVPDKA EDSKMDAPKEIFLKNYTKPDYYFETVDLSFSLGEEKTIVSSKIKVSPRVKGSSAALVLDGHDLK LLSVKVEGKLLKTHKQNSRRLICSVATESVPDKAEDSKMDAPKEIFLKNYTKPDYYFETVDLSF SLGEEKTIVSSKIKVSPRVKGSSAALVLDGHDLKLLSVKVEGKLLK(-)
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 AT1G63770_circ_g.16

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