Plant Circular RNA Database

Detail information of AT5G08500_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G08500_circ_g.2
					
						ID in PlantcircBase
						ath_circ_037069
					
						Alias
						5:2748661-2749415
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 2748661-2749415  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT5G08500						
					
						Parent gene annotation
						
							Cleft lip and palate associated transmembrane protein-like
							
						Parent gene strand
						+
					
						Alternative splicing
						
							AT5G08300_circ_g.1 AT5G08300_circ_g.2 AT5G08300_circ_g.3 5_circ_ag.4 AT5G08370_circ_g.1 AT5G08370_circ_g.2 AT5G08370_circ_g.3 AT5G08370_circ_g.4 AT5G08370_circ_g.5 AT5G08380_circ_g.1 AT5G08380_circ_g.2 AT5G08380_circ_g.3 AT5G08380_circ_g.4 AT5G08390_circ_g.1 AT5G08390_circ_g.2 AT5G08390_circ_g.3 AT5G08390_circ_g.4 AT5G08390_circ_g.5 AT5G08390_circ_g.6 AT5G08390_circ_g.7 AT5G08390_circ_g.8 AT5G08390_circ_g.9 5_circ_ag.10 AT5G08410_circ_g.1 AT5G08410_circ_g.2 AT5G08410_circ_g.3 AT5G08415_circ_g.1 AT5G08415_circ_g.2 AT5G08415_circ_g.3 AT5G08415_circ_g.4 AT5G08415_circ_g.5 AT5G08420_circ_g.1 AT5G08420_circ_g.2 AT5G08420_circ_g.3 AT5G08420_circ_g.4 AT5G08420_circ_g.5 AT5G08420_circ_g.6 AT5G08420_circ_g.7 AT5G08430_circ_g.1 AT5G08430_circ_g.2 AT5G08430_circ_g.3 AT5G08440_circ_g.1 AT5G08440_circ_g.2 AT5G08440_circ_g.3 AT5G08440_circ_g.4 AT5G08440_circ_g.5 AT5G08440_circ_g.6 AT5G08440_circ_g.7 AT5G08450_circ_g.1 AT5G08450_circ_g.2 AT5G08450_circ_g.3 AT5G08450_circ_g.4 AT5G08450_circ_g.5 AT5G08450_circ_g.6 AT5G08450_circ_g.7 AT5G08450_circ_g.8 AT5G08470_circ_g.1 AT5G08470_circ_g.2 AT5G08470_circ_g.3 AT5G08470_circ_g.4 AT5G08470_circ_g.5 AT5G08470_circ_g.6 AT5G08470_circ_g.7 AT5G08470_circ_g.8 AT5G08470_circ_g.9 AT5G08470_circ_g.10 AT5G08470_circ_g.11 AT5G08470_circ_g.12 AT5G08470_circ_g.13 AT5G08470_circ_g.14 AT5G08500_circ_g.1 AT5G08500_circ_g.3 AT5G08500_circ_g.4 AT5G08500_circ_g.5 AT5G08530_circ_g.1 AT5G08530_circ_g.2 AT5G08530_circ_g.3 AT5G08530_circ_g.4 AT5G08530_circ_g.5 AT5G08530_circ_g.6 AT5G08535_circ_g.1 AT5G08535_circ_g.2 						
					
						Support reads
						1/1
					
						Tissues
						root;flower
					
						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
						AT5G08500.1:4
AT5G08500.2:4

General Information
CircRNA Name	AT5G08500_circ_g.2
ID in PlantcircBase	ath_circ_037069
Alias	5:2748661-2749415
Organism	Arabidpsis thaliana
Position	chr5: 2748661-2749415 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT5G08500
Parent gene annotation	Cleft lip and palate associated transmembrane protein-like
Parent gene strand	+
Alternative splicing	AT5G08300_circ_g.1 AT5G08300_circ_g.2 AT5G08300_circ_g.3 5_circ_ag.4 AT5G08370_circ_g.1 AT5G08370_circ_g.2 AT5G08370_circ_g.3 AT5G08370_circ_g.4 AT5G08370_circ_g.5 AT5G08380_circ_g.1 AT5G08380_circ_g.2 AT5G08380_circ_g.3 AT5G08380_circ_g.4 AT5G08390_circ_g.1 AT5G08390_circ_g.2 AT5G08390_circ_g.3 AT5G08390_circ_g.4 AT5G08390_circ_g.5 AT5G08390_circ_g.6 AT5G08390_circ_g.7 AT5G08390_circ_g.8 AT5G08390_circ_g.9 5_circ_ag.10 AT5G08410_circ_g.1 AT5G08410_circ_g.2 AT5G08410_circ_g.3 AT5G08415_circ_g.1 AT5G08415_circ_g.2 AT5G08415_circ_g.3 AT5G08415_circ_g.4 AT5G08415_circ_g.5 AT5G08420_circ_g.1 AT5G08420_circ_g.2 AT5G08420_circ_g.3 AT5G08420_circ_g.4 AT5G08420_circ_g.5 AT5G08420_circ_g.6 AT5G08420_circ_g.7 AT5G08430_circ_g.1 AT5G08430_circ_g.2 AT5G08430_circ_g.3 AT5G08440_circ_g.1 AT5G08440_circ_g.2 AT5G08440_circ_g.3 AT5G08440_circ_g.4 AT5G08440_circ_g.5 AT5G08440_circ_g.6 AT5G08440_circ_g.7 AT5G08450_circ_g.1 AT5G08450_circ_g.2 AT5G08450_circ_g.3 AT5G08450_circ_g.4 AT5G08450_circ_g.5 AT5G08450_circ_g.6 AT5G08450_circ_g.7 AT5G08450_circ_g.8 AT5G08470_circ_g.1 AT5G08470_circ_g.2 AT5G08470_circ_g.3 AT5G08470_circ_g.4 AT5G08470_circ_g.5 AT5G08470_circ_g.6 AT5G08470_circ_g.7 AT5G08470_circ_g.8 AT5G08470_circ_g.9 AT5G08470_circ_g.10 AT5G08470_circ_g.11 AT5G08470_circ_g.12 AT5G08470_circ_g.13 AT5G08470_circ_g.14 AT5G08500_circ_g.1 AT5G08500_circ_g.3 AT5G08500_circ_g.4 AT5G08500_circ_g.5 AT5G08530_circ_g.1 AT5G08530_circ_g.2 AT5G08530_circ_g.3 AT5G08530_circ_g.4 AT5G08530_circ_g.5 AT5G08530_circ_g.6 AT5G08535_circ_g.1 AT5G08535_circ_g.2
Support reads	1/1
Tissues	root;flower
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	AT5G08500.1:4 AT5G08500.2:4

			
						 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  
						
							TTGATGGTAAGGACTCGGATCTCAAGGATGAGGGCCCTGTGGAATGGGTATCCTACTGGAAACC
AAATGTCACAATTAACCTAGTCGATGACTTTACTCGgatatgtggttttatctttcggagcatg
agaaattcaatgacttcggcaatgaaggtgcgcttatttggcatgagacaaacataccttatgc
tgtgtgga

						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: 461
Transcript exons: 2748661-2748807,2748893-2749007,2749108-2749202,2749312-
2749415
GATATGTGGTTTTATCTTTCGGAGCATGAGAAATTCAATGACTTCGGCAATGAAGGTGCGCTTA
TTTGGCATGAGACAAACATACCTTATGCTGTGTGGAAACCAGAGAGCACTAGGACCTTGTCAAT
GACGTACTATCCTTCCGAGGCACTGAAGAATAATGGAAGTCTGTATGCTCATGTCTTCTTTGCT
CTATCTGGTTATCCTATAGATCTTAGTGATCCTGAATACCAGCCTCTCAACTGCTTTGGCAGGA
CTCACCCTGTTGCAACTTACTTACCAAAGCGAAAAGCAGATAAGAAGAAGAGTCTGTTGGGAAA
TCCCAAAGACTCTGATGAATCCCATGTGGAAGTTGAGGAGGTTGATGGTAAGGACTCGGATCTC
AAGGATGAGGGCCCTGTGGAATGGGTATCCTACTGGAAACCAAATGTCACAATTAACCTAGTCG
ATGACTTTACTCG
						
						Genomic sequence
						
							GATATGTGGTTTTATCTTTCGGAGCATGAGAAATTCAATGACTTCGGCAATGAAGGTGCGCTTA
TTTGGCATGAGACAAACATACCTTATGCTGTGTGGAAACCAGAGAGCACTAGGACCTTGTCAAT
GACGTACTATCCTTCCGAGGTAATAGAAGTTTGGTTTTTTTTCATATGCTTCCTTCGAGATTAA
TATATTTGCTGCATTGAATTAAAGATGTTTGTTGTTCCAGGCACTGAAGAATAATGGAAGTCTG
TATGCTCATGTCTTCTTTGCTCTATCTGGTTATCCTATAGATCTTAGTGATCCTGAATACCAGC
CTCTCAACTGCTTTGGCAGGACTCACCGTAAGACTTCCCTTTCCTTAGACAAACAACCTTTTTG
ATAGTTGTTGGTAGTGAAATTCTTGTATCCGCTAAAATTGTATGACTCTTTTCACTATTTCAGC
TGTTGCAACTTACTTACCAAAGCGAAAAGCAGATAAGAAGAAGAGTCTGTTGGGAAATCCCAAA
GACTCTGATGAATCCCATGTGGAAGTTGAGGTATGTCTCTACAGAAATTTTTGTATGTTGTTAT
GTTAATGTTTGGCCTGTGATGGAGCCAGTGTGATGGCAATCATTCTTATGAACTAACACAAAGC
AAACTTCGCAGGAGGTTGATGGTAAGGACTCGGATCTCAAGGATGAGGGCCCTGTGGAATGGGT
ATCCTACTGGAAACCAAATGTCACAATTAACCTAGTCGATGACTTTACTCG

Sequences
Splice junction sequence	TTGATGGTAAGGACTCGGATCTCAAGGATGAGGGCCCTGTGGAATGGGTATCCTACTGGAAACC AAATGTCACAATTAACCTAGTCGATGACTTTACTCGgatatgtggttttatctttcggagcatg agaaattcaatgacttcggcaatgaaggtgcgcttatttggcatgagacaaacataccttatgc tgtgtgga
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: 461 Transcript exons: 2748661-2748807,2748893-2749007,2749108-2749202,2749312- 2749415 GATATGTGGTTTTATCTTTCGGAGCATGAGAAATTCAATGACTTCGGCAATGAAGGTGCGCTTA TTTGGCATGAGACAAACATACCTTATGCTGTGTGGAAACCAGAGAGCACTAGGACCTTGTCAAT GACGTACTATCCTTCCGAGGCACTGAAGAATAATGGAAGTCTGTATGCTCATGTCTTCTTTGCT CTATCTGGTTATCCTATAGATCTTAGTGATCCTGAATACCAGCCTCTCAACTGCTTTGGCAGGA CTCACCCTGTTGCAACTTACTTACCAAAGCGAAAAGCAGATAAGAAGAAGAGTCTGTTGGGAAA TCCCAAAGACTCTGATGAATCCCATGTGGAAGTTGAGGAGGTTGATGGTAAGGACTCGGATCTC AAGGATGAGGGCCCTGTGGAATGGGTATCCTACTGGAAACCAAATGTCACAATTAACCTAGTCG ATGACTTTACTCG
Genomic sequence	GATATGTGGTTTTATCTTTCGGAGCATGAGAAATTCAATGACTTCGGCAATGAAGGTGCGCTTA TTTGGCATGAGACAAACATACCTTATGCTGTGTGGAAACCAGAGAGCACTAGGACCTTGTCAAT GACGTACTATCCTTCCGAGGTAATAGAAGTTTGGTTTTTTTTCATATGCTTCCTTCGAGATTAA TATATTTGCTGCATTGAATTAAAGATGTTTGTTGTTCCAGGCACTGAAGAATAATGGAAGTCTG TATGCTCATGTCTTCTTTGCTCTATCTGGTTATCCTATAGATCTTAGTGATCCTGAATACCAGC CTCTCAACTGCTTTGGCAGGACTCACCGTAAGACTTCCCTTTCCTTAGACAAACAACCTTTTTG ATAGTTGTTGGTAGTGAAATTCTTGTATCCGCTAAAATTGTATGACTCTTTTCACTATTTCAGC TGTTGCAACTTACTTACCAAAGCGAAAAGCAGATAAGAAGAAGAGTCTGTTGGGAAATCCCAAA GACTCTGATGAATCCCATGTGGAAGTTGAGGTATGTCTCTACAGAAATTTTTGTATGTTGTTAT GTTAATGTTTGGCCTGTGATGGAGCCAGTGTGATGGCAATCATTCTTATGAACTAACACAAAGC AAACTTCGCAGGAGGTTGATGGTAAGGACTCGGATCTCAAGGATGAGGGCCCTGTGGAATGGGT ATCCTACTGGAAACCAAATGTCACAATTAACCTAGTCGATGACTTTACTCG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.314114243

Conservation Information
Conserved circRNAs	NA
PMCS	0.314114243

			
						 Functional Information
					
						Coding potential
						NA
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							ath-miR5019 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	NA
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	ath-miR5019
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT5G08500_circ_g.2

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