Plant Circular RNA Database

Detail information of AT1G05170_circ_g.1

			
						 General Information
					
						CircRNA Name
						AT1G05170_circ_g.1
					
						ID in PlantcircBase
						ath_circ_000772
					
						Alias
						Ath_circ_FC4836
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 1491940-1493591  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT1G05170						
					
						Parent gene annotation
						
							Hexosyltransferase (Fragment)
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G05170_circ_g.2 AT1G05170_circ_g.3 AT1G05170_circ_g.4 AT1G05170_circ_g.5 AT1G05170_circ_g.6 AT1G05170_circ_g.7 						
					
						Support reads
						1
					
						Tissues
						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
						AT1G05170.1:9
AT1G05170.2:9

General Information
CircRNA Name	AT1G05170_circ_g.1
ID in PlantcircBase	ath_circ_000772
Alias	Ath_circ_FC4836
Organism	Arabidpsis thaliana
Position	chr1: 1491940-1493591 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT1G05170
Parent gene annotation	Hexosyltransferase (Fragment)
Parent gene strand	-
Alternative splicing	AT1G05170_circ_g.2 AT1G05170_circ_g.3 AT1G05170_circ_g.4 AT1G05170_circ_g.5 AT1G05170_circ_g.6 AT1G05170_circ_g.7
Support reads	1
Tissues	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	AT1G05170.1:9 AT1G05170.2:9

			
						 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  
						
							CACAGCTTTTGGATTGCAGCCTTCAGAGACCAGCTTCAATCTCTCAGCTTCGGTTACAGATGGA
TGAGACATGCCTTTAGATTCCGGAATATTCCACATCcaggaggagttccgcagcataatcttct
atcatcaatgtgtttaacatcaatcccgataaaccaagctcctagcgaaacatcttcgttcgca
tacttgtg

									
								

					

						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: 965
Transcript exons: 1491940-1492049,1492136-1492261,1492336-1492423,1492528-
1492648,1492733-1492805,1492889-1492952,1493029-1493240,
1493328-1493401,1493495-1493591
CAGGAGGAGTTCCGCAGCATAATCTTCTATCATCAATGTGTTTAACATCAATCCCGATAAACCA
AGCTCCTAGCGAAACATCTTCGTTCGCATACTTGTGAAGAACATGCTGATTGATTGATATATAA
GAAGCCAAGTCCCTTGAAATGGCGTATAACTGTCCAGTAGCATGACGGAAGTATTTGTTCCCAT
TTTCACCAAACTTCCAGTACTCTGGCTCATGGTACCTCACCCCTTTTTGAGAGAGGACAGGGCC
AGATTTCATGCAACCAATATAGACCCGTGGTTTTTTCCGGTGTCTAACAAGAGTTTCCCCAAGA
GTTGCTATATTGACATGAACATCATCATCTACTTTGACATAGAAATCTGCATCCCACATCGAAA
ATGCTGTAGAAAAGTAAGTTTTCGTCTTGCCTGACAACTCTAGGTACCCTTCAACATGGTCCAG
TCTCAAGAAATCTCCATGCTTCCTGTCCTCAGCTTCTATAGCTCGATCTAGAATTCCCCCGGTC
GTGGCACTGTGACCAATGACAAACCGGATGATAATCCCCTTCTCCTCTTCTAGTCTCTTCCTTT
TTTCACCTTGAGGCATCCAAGTTGCTCGAATAGAATCTCTTCTCTTTCTGCTACTAAAAGCTGT
ATTAATCCCAACGACCATCAAAAACCGTCTCTGTTCCTGAGGTTGCTTCTTCCCCATATCATCT
GATAAAGGAGCACCGTTTTGTAAAGATTCCTGAACTGACCTTGCTGCAGCTAACTCCATCTCTA
AGCTTGAAATGGTCTTATCCAATGTCTGTAATGCAATATGTGTATTGGCTACTTCTCCAAACAA
AGCCTGAGGATCTCTTTTGACTTCTTTCTGGTAAAGAGCTTTTGGATTGCAGCCTTCAGAGACC
AGCTTCAATCTCTCAGCTTCGGTTACAGATGGATGAGACATGCCTTTAGATTCCGGAATATTCC
ACATC
						
					

						Genomic sequence
						
							CAGGAGGAGTTCCGCAGCATAATCTTCTATCATCAATGTGTTTAACATCAATCCCGATAAACCA
AGCTCCTAGCGAAACATCTTCGTTCGCATACTTGTGAAGAACATGCCTGAAACATTTAACATGT
ATAAGAACGAAGAGTTACATGAGTTAACAAATGAGCTATGATACAATGTAATCTCATCTTCATC
TTACTGATTGATTGATATATAAGAAGCCAAGTCCCTTGAAATGGCGTATAACTGTCCAGTAGCA
TGACGGAAGTATTTGTTCCCATTTTCACCAAACTTCCAGTACTCTGGCTCATGGTACCTCACCC
CTCTGCTCCATAAAACAAAGATGACTTAACAAGAATACAAAATTGATATGAAGGAGGAAACTGG
AAGATGCTTTACTTTTGAGAGAGGACAGGGCCAGATTTCATGCAACCAATATAGACCCGTGGTT
TTTTCCGGTGTCTAACAAGAGTTTCCCCAAGAGTTGCTGCAGACATTTCAGTGAAACATTGAAC
CCATTAGTATTGCCAGTATAAGGTATGCAAAATGACATAAAGAAAACCAATTCAATTCGTTGAT
TTTAGAACTTACCTATATTGACATGAACATCATCATCTACTTTGACATAGAAATCTGCATCCCA
CATCGAAAATGCTGTAGAAAAGTAAGTTTTCGTCTTGCCTGACAACTCTAGGTACCCTTCAACA
TGGTCCTATAAAAAACAAGTGAGTAATGAGAATGAAGATAAGAGCTAGCCTTAGACTTGTTAAA
CAGTGAACTATATTCAGAACTATACCAGTCTCAAGAAATCTCCATGCTTCCTGTCCTCAGCTTC
TATAGCTCGATCTAGAATTCCCCCGGTCGTGGCACTATAGAACAATGACACACATCATCAGTAT
ACAGAGAACCAAAATGAAACTCACATCAGAAACTAAAGAAAACAAAACTTCACCTGTGACCAAT
GACAAACCGGATGATAATCCCCTTCTCCTCTTCTAGTCTCTTCCTTTTTTCACCTGAAAACAAC
AACATTTCAATCAGATACAACCATCAAGGAACATAGTTGATCAAAGATAAAAGTGTAATAAAAA
CCTTGAGGCATCCAAGTTGCTCGAATAGAATCTCTTCTCTTTCTGCTACTAAAAGCTGTATTAA
TCCCAACGACCATCAAAAACCGTCTCTGTTCCTGAGGTTGCTTCTTCCCCATATCATCTGATAA
AGGAGCACCGTTTTGTAAAGATTCCTGAACTGACCTTGCTGCAGCTAACTCCATCTCTAAGCTT
GAAATGGTCTTATCCAATGTCCTGCAGGTAACAACACAAAACAAATTATTAAACATCAAAACTT
CTATGTTATATTTGAAATGACACAGCAAAAGATTGAAACTTTACTGTAATGCAATATGTGTATT
GGCTACTTCTCCAAACAAAGCCTGAGGATCTCTTTTGACTTCTTTCTGGTAAAGCTAATGGAGA
AACCAATCAGATTGGATTATATAAAACACAAGTTTCATAAATCAAATAATGAAACCAGTTAAGA
AGAATCCATGTTGACTCACAGCTTTTGGATTGCAGCCTTCAGAGACCAGCTTCAATCTCTCAGC
TTCGGTTACAGATGGATGAGACATGCCTTTAGATTCCGGAATATTCCACATC
						
					

			
		

Sequences
Splice junction sequence	CACAGCTTTTGGATTGCAGCCTTCAGAGACCAGCTTCAATCTCTCAGCTTCGGTTACAGATGGA TGAGACATGCCTTTAGATTCCGGAATATTCCACATCcaggaggagttccgcagcataatcttct atcatcaatgtgtttaacatcaatcccgataaaccaagctcctagcgaaacatcttcgttcgca tacttgtg
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: 965 Transcript exons: 1491940-1492049,1492136-1492261,1492336-1492423,1492528- 1492648,1492733-1492805,1492889-1492952,1493029-1493240, 1493328-1493401,1493495-1493591 CAGGAGGAGTTCCGCAGCATAATCTTCTATCATCAATGTGTTTAACATCAATCCCGATAAACCA AGCTCCTAGCGAAACATCTTCGTTCGCATACTTGTGAAGAACATGCTGATTGATTGATATATAA GAAGCCAAGTCCCTTGAAATGGCGTATAACTGTCCAGTAGCATGACGGAAGTATTTGTTCCCAT TTTCACCAAACTTCCAGTACTCTGGCTCATGGTACCTCACCCCTTTTTGAGAGAGGACAGGGCC AGATTTCATGCAACCAATATAGACCCGTGGTTTTTTCCGGTGTCTAACAAGAGTTTCCCCAAGA GTTGCTATATTGACATGAACATCATCATCTACTTTGACATAGAAATCTGCATCCCACATCGAAA ATGCTGTAGAAAAGTAAGTTTTCGTCTTGCCTGACAACTCTAGGTACCCTTCAACATGGTCCAG TCTCAAGAAATCTCCATGCTTCCTGTCCTCAGCTTCTATAGCTCGATCTAGAATTCCCCCGGTC GTGGCACTGTGACCAATGACAAACCGGATGATAATCCCCTTCTCCTCTTCTAGTCTCTTCCTTT TTTCACCTTGAGGCATCCAAGTTGCTCGAATAGAATCTCTTCTCTTTCTGCTACTAAAAGCTGT ATTAATCCCAACGACCATCAAAAACCGTCTCTGTTCCTGAGGTTGCTTCTTCCCCATATCATCT GATAAAGGAGCACCGTTTTGTAAAGATTCCTGAACTGACCTTGCTGCAGCTAACTCCATCTCTA AGCTTGAAATGGTCTTATCCAATGTCTGTAATGCAATATGTGTATTGGCTACTTCTCCAAACAA AGCCTGAGGATCTCTTTTGACTTCTTTCTGGTAAAGAGCTTTTGGATTGCAGCCTTCAGAGACC AGCTTCAATCTCTCAGCTTCGGTTACAGATGGATGAGACATGCCTTTAGATTCCGGAATATTCC ACATC
Genomic sequence	CAGGAGGAGTTCCGCAGCATAATCTTCTATCATCAATGTGTTTAACATCAATCCCGATAAACCA AGCTCCTAGCGAAACATCTTCGTTCGCATACTTGTGAAGAACATGCCTGAAACATTTAACATGT ATAAGAACGAAGAGTTACATGAGTTAACAAATGAGCTATGATACAATGTAATCTCATCTTCATC TTACTGATTGATTGATATATAAGAAGCCAAGTCCCTTGAAATGGCGTATAACTGTCCAGTAGCA TGACGGAAGTATTTGTTCCCATTTTCACCAAACTTCCAGTACTCTGGCTCATGGTACCTCACCC CTCTGCTCCATAAAACAAAGATGACTTAACAAGAATACAAAATTGATATGAAGGAGGAAACTGG AAGATGCTTTACTTTTGAGAGAGGACAGGGCCAGATTTCATGCAACCAATATAGACCCGTGGTT TTTTCCGGTGTCTAACAAGAGTTTCCCCAAGAGTTGCTGCAGACATTTCAGTGAAACATTGAAC CCATTAGTATTGCCAGTATAAGGTATGCAAAATGACATAAAGAAAACCAATTCAATTCGTTGAT TTTAGAACTTACCTATATTGACATGAACATCATCATCTACTTTGACATAGAAATCTGCATCCCA CATCGAAAATGCTGTAGAAAAGTAAGTTTTCGTCTTGCCTGACAACTCTAGGTACCCTTCAACA TGGTCCTATAAAAAACAAGTGAGTAATGAGAATGAAGATAAGAGCTAGCCTTAGACTTGTTAAA CAGTGAACTATATTCAGAACTATACCAGTCTCAAGAAATCTCCATGCTTCCTGTCCTCAGCTTC TATAGCTCGATCTAGAATTCCCCCGGTCGTGGCACTATAGAACAATGACACACATCATCAGTAT ACAGAGAACCAAAATGAAACTCACATCAGAAACTAAAGAAAACAAAACTTCACCTGTGACCAAT GACAAACCGGATGATAATCCCCTTCTCCTCTTCTAGTCTCTTCCTTTTTTCACCTGAAAACAAC AACATTTCAATCAGATACAACCATCAAGGAACATAGTTGATCAAAGATAAAAGTGTAATAAAAA CCTTGAGGCATCCAAGTTGCTCGAATAGAATCTCTTCTCTTTCTGCTACTAAAAGCTGTATTAA TCCCAACGACCATCAAAAACCGTCTCTGTTCCTGAGGTTGCTTCTTCCCCATATCATCTGATAA AGGAGCACCGTTTTGTAAAGATTCCTGAACTGACCTTGCTGCAGCTAACTCCATCTCTAAGCTT GAAATGGTCTTATCCAATGTCCTGCAGGTAACAACACAAAACAAATTATTAAACATCAAAACTT CTATGTTATATTTGAAATGACACAGCAAAAGATTGAAACTTTACTGTAATGCAATATGTGTATT GGCTACTTCTCCAAACAAAGCCTGAGGATCTCTTTTGACTTCTTTCTGGTAAAGCTAATGGAGA AACCAATCAGATTGGATTATATAAAACACAAGTTTCATAAATCAAATAATGAAACCAGTTAAGA AGAATCCATGTTGACTCACAGCTTTTGGATTGCAGCCTTCAGAGACCAGCTTCAATCTCTCAGC TTCGGTTACAGATGGATGAGACATGCCTTTAGATTCCGGAATATTCCACATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.258754544

Conservation Information
Conserved circRNAs	NA
PMCS	0.258754544

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

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
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 AT1G05170_circ_g.1

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