Plant Circular RNA Database

Detail information of AT1G64720_circ_g.5

			
						 General Information
					
						CircRNA Name
						AT1G64720_circ_g.5
					
						ID in PlantcircBase
						ath_circ_008678
					
						Alias
						At_ciR331, AT1G64720_C2
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 24047621-24047963  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, CIRI-full, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, circseq_cup, CIRI2
					
						Parent gene
						
							AT1G64720						
					
						Parent gene annotation
						
							Polyketide cyclase/dehydrase and lipid transport superfamily pro
tein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G64720_circ_g.3 AT1G64720_circ_g.4 AT1G64720_circ_g.6 AT1G64720_circ_g.7 AT1G64720_circ_g.8 AT1G64720_circ_g.9 						
					
						Support reads
						16/80/5
					
						Tissues
						leaf/root, aerial, inflorescences, whole_plant/seedlings
					
						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
						AT1G64720.1:2

General Information
CircRNA Name	AT1G64720_circ_g.5
ID in PlantcircBase	ath_circ_008678
Alias	At_ciR331, AT1G64720_C2
Organism	Arabidpsis thaliana
Position	chr1: 24047621-24047963 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, CIRI-full, KNIFE, MapSplice, PcircRNA_finder, circRNA_finder, find_circ, circseq_cup, CIRI2
Parent gene	AT1G64720
Parent gene annotation	Polyketide cyclase/dehydrase and lipid transport superfamily pro tein
Parent gene strand	-
Alternative splicing	AT1G64720_circ_g.3 AT1G64720_circ_g.4 AT1G64720_circ_g.6 AT1G64720_circ_g.7 AT1G64720_circ_g.8 AT1G64720_circ_g.9
Support reads	16/80/5
Tissues	leaf/root, aerial, inflorescences, whole_plant/seedlings
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	AT1G64720.1:2

			
						 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  
						
							CCCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGGCATCCTC
AAACACAGTTCTGCTACGGTACTGGGGAGGCCCATTcttagtaatgcagtaaaagactcggcca
gcatcccatatacgacggcctataatatactccctgtcgctacaaaagaaggggaactgcaaca
gtagcgga

									
								

					

						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: 181
Transcript exons: 24047621-24047654,24047817-24047963
CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCGTGTCCTTGCAACGCTCGAGAGTAGAAGA
ATACAAAAGCATATCATCCCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATC
TCGGGAGTGGCATCCTCAAACACAGTTCTGCTACGGTACTGGGGAGGCCCATT
Transcript length: 227
Transcript exons: 24047621-24047698,24047815-24047963
CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG
TCGCTACAAAAGAACCCGTGTCCTTGCAACGCTCGAGAGTAGAAGAATACAAAAGCATATCATC
CCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGGCATCCTCA
AACACAGTTCTGCTACGGTACTGGGGAGGCCCATT
Transcript length: 235
Transcript exons: 24047621-24047707,24047816-24047963
CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG
TCGCTACAAAAGAAGGGGAACTGCCGTGTCCTTGCAACGCTCGAGAGTAGAAGAATACAAAAGC
ATATCATCCCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGG
CATCCTCAAACACAGTTCTGCTACGGTACTGGGGAGGCCCATT
Transcript length: 261
Transcript exons: 24047621-24047704,24047787-24047963
CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG
TCGCTACAAAAGAAGGGGAACTTTCGCACCCATTGCACAACCATAGTGCCCGTGTCCTTGCAAC
GCTCGAGAGTAGAAGAATACAAAAGCATATCATCCCACTTGGAACGGAACTCATCATCCCAAAA
GAAGTCCCTGACCATCTCGGGAGTGGCATCCTCAAACACAGTTCTGCTACGGTACTGGGGAGGC
CCATT
						
					

						Genomic sequence
						
							CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG
TCGCTACAAAAGAAGGGGAACTGCAACAGTAGCGGAAGATATGAGTAAAGAGAAGGGAGAAGAA
GCAAACAGAACGAAGAAAAAAGAGAAACAAGTAGCGACCTTTCGCACCCATTGCACAACCATAG
TGCCCGTGTCCTTGCAACGCTCGAGAGTAGAAGAATACAAAAGCATATCATCCCACTTGGAACG
GAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGGCATCCTCAAACACAGTTCTG
CTACGGTACTGGGGAGGCCCATT
						
					

			
		

Sequences
Splice junction sequence	CCCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGGCATCCTC AAACACAGTTCTGCTACGGTACTGGGGAGGCCCATTcttagtaatgcagtaaaagactcggcca gcatcccatatacgacggcctataatatactccctgtcgctacaaaagaaggggaactgcaaca gtagcgga
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: 181 Transcript exons: 24047621-24047654,24047817-24047963 CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCGTGTCCTTGCAACGCTCGAGAGTAGAAGA ATACAAAAGCATATCATCCCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATC TCGGGAGTGGCATCCTCAAACACAGTTCTGCTACGGTACTGGGGAGGCCCATT Transcript length: 227 Transcript exons: 24047621-24047698,24047815-24047963 CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG TCGCTACAAAAGAACCCGTGTCCTTGCAACGCTCGAGAGTAGAAGAATACAAAAGCATATCATC CCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGGCATCCTCA AACACAGTTCTGCTACGGTACTGGGGAGGCCCATT Transcript length: 235 Transcript exons: 24047621-24047707,24047816-24047963 CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG TCGCTACAAAAGAAGGGGAACTGCCGTGTCCTTGCAACGCTCGAGAGTAGAAGAATACAAAAGC ATATCATCCCACTTGGAACGGAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGG CATCCTCAAACACAGTTCTGCTACGGTACTGGGGAGGCCCATT Transcript length: 261 Transcript exons: 24047621-24047704,24047787-24047963 CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG TCGCTACAAAAGAAGGGGAACTTTCGCACCCATTGCACAACCATAGTGCCCGTGTCCTTGCAAC GCTCGAGAGTAGAAGAATACAAAAGCATATCATCCCACTTGGAACGGAACTCATCATCCCAAAA GAAGTCCCTGACCATCTCGGGAGTGGCATCCTCAAACACAGTTCTGCTACGGTACTGGGGAGGC CCATT
Genomic sequence	CTTAGTAATGCAGTAAAAGACTCGGCCAGCATCCCATATACGACGGCCTATAATATACTCCCTG TCGCTACAAAAGAAGGGGAACTGCAACAGTAGCGGAAGATATGAGTAAAGAGAAGGGAGAAGAA GCAAACAGAACGAAGAAAAAAGAGAAACAAGTAGCGACCTTTCGCACCCATTGCACAACCATAG TGCCCGTGTCCTTGCAACGCTCGAGAGTAGAAGAATACAAAAGCATATCATCCCACTTGGAACG GAACTCATCATCCCAAAAGAAGTCCCTGACCATCTCGGGAGTGGCATCCTCAAACACAGTTCTG CTACGGTACTGGGGAGGCCCATT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.78702302

Conservation Information
Conserved circRNAs	NA
PMCS	0.78702302

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							24047910-24047623(-)
						
						Potential amino acid sequence
						
							MVRDFFWDDEFRSKWDDMLLYSSTLERCKDTGTMVVQWVRKFPFFCSDREYIIGRRIWDAGRVF
YCITKNGPPQYRSRTVFEDATPEMVRDFFWDDEFRSKWDDMLLYSSTLERCKDTGTMVVQWVRK
FPFFCSDREYIIGRRIWDAGRVFYCITKNGPPQYRSRTVFEDATPEMVRDFFWDDEFRSKWDDM
LLYSSTLERCKDTGTMVVQWVRKFPFFCSDREYIIGRRIWDAGRVFYCITKNGPPQYRSRTVFE
DATPEMVRDFFWDDEFRSKWDDMLLYSSTLERCKDTGTMVVQWVRKFPFFCSDREYIIGRRIWD
AGRVFYCITK(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						response to drought stress; responsive to heat stress

Functional Information
Coding potential	Y
Potential coding position	24047910-24047623(-)
Potential amino acid sequence	MVRDFFWDDEFRSKWDDMLLYSSTLERCKDTGTMVVQWVRKFPFFCSDREYIIGRRIWDAGRVF YCITKNGPPQYRSRTVFEDATPEMVRDFFWDDEFRSKWDDMLLYSSTLERCKDTGTMVVQWVRK FPFFCSDREYIIGRRIWDAGRVFYCITKNGPPQYRSRTVFEDATPEMVRDFFWDDEFRSKWDDM LLYSSTLERCKDTGTMVVQWVRKFPFFCSDREYIIGRRIWDAGRVFYCITKNGPPQYRSRTVFE DATPEMVRDFFWDDEFRSKWDDMLLYSSTLERCKDTGTMVVQWVRKFPFFCSDREYIIGRRIWD AGRVFYCITK(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	response to drought stress; responsive to heat stress

			
						 Other Information
					
						References
						Ye et al., 2015;Chu et al., 2017;Pan et al., 2017;Liu et al., 2017;Zhang et al., 2019

circRNA

Detail information of AT1G64720_circ_g.5

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