Plant Circular RNA Database

Detail information of AT5G17770_circ_g.2

			
						 General Information
					
						CircRNA Name
						AT5G17770_circ_g.2
					
						ID in PlantcircBase
						ath_circ_038865
					
						Alias
						Ath_circ_FC3353, Ath_circ_FC3354
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr5: 5864838-5866186  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT5G17770						
					
						Parent gene annotation
						
							NADH-cytochrome b5 reductase
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT5G17770_circ_g.1 AT5G17770_circ_g.3 AT5G17770_circ_g.4 AT5G17770_circ_g.5 AT5G17770_circ_g.6 AT5G17770_circ_g.7 AT5G17770_circ_g.8 						
					
						Support reads
						9
					
						Tissues
						root, 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
						AT5G17770.1:7

General Information
CircRNA Name	AT5G17770_circ_g.2
ID in PlantcircBase	ath_circ_038865
Alias	Ath_circ_FC3353, Ath_circ_FC3354
Organism	Arabidpsis thaliana
Position	chr5: 5864838-5866186 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT5G17770
Parent gene annotation	NADH-cytochrome b5 reductase
Parent gene strand	-
Alternative splicing	AT5G17770_circ_g.1 AT5G17770_circ_g.3 AT5G17770_circ_g.4 AT5G17770_circ_g.5 AT5G17770_circ_g.6 AT5G17770_circ_g.7 AT5G17770_circ_g.8
Support reads	9
Tissues	root, 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	AT5G17770.1:7

			
						 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  
						
							GTAGAAGTTGGGAGTTCAAAAACGAACTTGGCCACATTGTGACTAAGCTGATGTCTCTTAACAA
GCTTGAACTCCTTGAAATTCTCTGGATCCAAACACActgaatatcagatgcaggtgcagggcaa
tgagtctgaatcatttcctttgatacaaatccaacaccaccatcccatacttccggaggctaat
attgtcat

									
								

					

						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: 635
Transcript exons: 5864838-5864924,5865041-5865106,5865217-5865306,5865390-
5865470,5865583-5865660,5865753-5865843,5866045-5866186
CTGAATATCAGATGCAGGTGCAGGGCAATGAGTCTGAATCATTTCCTTTGATACAAATCCAACA
CCACCATCCCATACTTCCGGAGGCTGGTTCAAAACATAGAAGATTTTAAATTGTTCAGGGTAAT
TGGTAGTAAGACCCTCCAATTCTTCCTTCAAGAGAATGTCGTCGTATGTGACGTTGGCGTAAAT
GAGATGCACCTTTGTCTTGTCTGTTGGGTTTTCTAGAATTGCTCTGGCCACTTGGAACATGGGA
GTGATGCCTGAACCTCCAGCAAGCATTCCAAATGCCCTAAACTGACCTGGTTGATACTTGAACC
TACCCTTTGGTCCCTTTACGGCAAGATGGTCTCCAACACGCATCTCCCTGAAATGATGAGACAT
CCGTCCTTGCGGATACATCTTAATGACAAGTTCGAAACGTCCAACGTCAGAGTCTAACGTAGTC
GGGGTGTATGGCTTAATAACATCCTCTCCTTGACCATCCTTTCCCCTGCAACTGATGTGTTGTC
CAATGGGAAGACCCAACACAGAAGTAGAAGTTGGGAGTTCAAAAACGAACTTGGCCACATTGTG
ACTAAGCTGATGTCTCTTAACAAGCTTGAACTCCTTGAAATTCTCTGGATCCAAACACA
						
					

						Genomic sequence
						
							CTGAATATCAGATGCAGGTGCAGGGCAATGAGTCTGAATCATTTCCTTTGATACAAATCCAACA
CCACCATCCCATACTTCCGGAGGCTAATATTGTCATAGACGATATACAAAAACAACAAGAACAA
AAGGTATCAGAAAGAGTTCTTTTTTTAGGTATTTACATTTGAGAAACGCAAAAAAAGTTGAATG
TTGTGGCTAACCTGGTTCAAAACATAGAAGATTTTAAATTGTTCAGGGTAATTGGTAGTAAGAC
CCTCCAATTCTTCCTGAAAAAAAAAAGTATTGATTCACTTAACATTTAGTGTTTGAAATTAGTC
TATGAAAACACAATACTTGTTCTCGACTCAAAAGAAACAGTAGGTGAAAGGCTTTTTACCTTCA
AGAGAATGTCGTCGTATGTGACGTTGGCGTAAATGAGATGCACCTTTGTCTTGTCTGTTGGGTT
TTCTAGAATTGCTCTGGCCACCTTCACAATTAAGAAATATAACGCGTTTAAAACATATACATTG
GCTTCAAAAACGATATCAAACGCAAATGTATCAGACATACTTGGAACATGGGAGTGATGCCTGA
ACCTCCAGCAAGCATTCCAAATGCCCTAAACTGACCTGGTTGATACTTGAACCTACCCTGACAA
GTAAAGGGTAATAAAACAAAAAAAGTTTTGAGATTCAAAAAAAGTATAGAATAACAATGTTGCT
TGTGTAAGATCAAGTAAGCAAGACATCTAACTTAAAGGTACCTTTGGTCCCTTTACGGCAAGAT
GGTCTCCAACACGCATCTCCCTGAAATGATGAGACATCCGTCCTTGCGGATACATCTATTTGGC
AGCATTTTTCGATTGAATTAGGGAGAAGGAACACCCGAATTCAAAAACCAAGTCAAGTTGAGAA
AATGTATTTAAGCATATACCTTAATGACAAGTTCGAAACGTCCAACGTCAGAGTCTAACGTAGT
CGGGGTGTATGGCTTAATAACATCCTCTCCTTGACCATCCTTTCCCCTATTGAGAAAGTCACGA
TACTCATCACAACACATCCATGGAAACTCACTAATTGAATCTCAACACAAAACCTAACCTAAAC
TCTCTACAATAATGCATGTTCACAGCCATTTTGGATAGGTTTCAGAATCTAGCAACTGGCAGGA
GTGGCGATTGGCGAACAAAACACAGAGAGGATAATAAGAAGTACGAGGACCAAACCTGCAACTG
ATGTGTTGTCCAATGGGAAGACCCAACACAGAAGTAGAAGTTGGGAGTTCAAAAACGAACTTGG
CCACATTGTGACTAAGCTGATGTCTCTTAACAAGCTTGAACTCCTTGAAATTCTCTGGATCCAA
ACACA
						
					

			
		

Sequences
Splice junction sequence	GTAGAAGTTGGGAGTTCAAAAACGAACTTGGCCACATTGTGACTAAGCTGATGTCTCTTAACAA GCTTGAACTCCTTGAAATTCTCTGGATCCAAACACActgaatatcagatgcaggtgcagggcaa tgagtctgaatcatttcctttgatacaaatccaacaccaccatcccatacttccggaggctaat attgtcat
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: 635 Transcript exons: 5864838-5864924,5865041-5865106,5865217-5865306,5865390- 5865470,5865583-5865660,5865753-5865843,5866045-5866186 CTGAATATCAGATGCAGGTGCAGGGCAATGAGTCTGAATCATTTCCTTTGATACAAATCCAACA CCACCATCCCATACTTCCGGAGGCTGGTTCAAAACATAGAAGATTTTAAATTGTTCAGGGTAAT TGGTAGTAAGACCCTCCAATTCTTCCTTCAAGAGAATGTCGTCGTATGTGACGTTGGCGTAAAT GAGATGCACCTTTGTCTTGTCTGTTGGGTTTTCTAGAATTGCTCTGGCCACTTGGAACATGGGA GTGATGCCTGAACCTCCAGCAAGCATTCCAAATGCCCTAAACTGACCTGGTTGATACTTGAACC TACCCTTTGGTCCCTTTACGGCAAGATGGTCTCCAACACGCATCTCCCTGAAATGATGAGACAT CCGTCCTTGCGGATACATCTTAATGACAAGTTCGAAACGTCCAACGTCAGAGTCTAACGTAGTC GGGGTGTATGGCTTAATAACATCCTCTCCTTGACCATCCTTTCCCCTGCAACTGATGTGTTGTC CAATGGGAAGACCCAACACAGAAGTAGAAGTTGGGAGTTCAAAAACGAACTTGGCCACATTGTG ACTAAGCTGATGTCTCTTAACAAGCTTGAACTCCTTGAAATTCTCTGGATCCAAACACA
Genomic sequence	CTGAATATCAGATGCAGGTGCAGGGCAATGAGTCTGAATCATTTCCTTTGATACAAATCCAACA CCACCATCCCATACTTCCGGAGGCTAATATTGTCATAGACGATATACAAAAACAACAAGAACAA AAGGTATCAGAAAGAGTTCTTTTTTTAGGTATTTACATTTGAGAAACGCAAAAAAAGTTGAATG TTGTGGCTAACCTGGTTCAAAACATAGAAGATTTTAAATTGTTCAGGGTAATTGGTAGTAAGAC CCTCCAATTCTTCCTGAAAAAAAAAAGTATTGATTCACTTAACATTTAGTGTTTGAAATTAGTC TATGAAAACACAATACTTGTTCTCGACTCAAAAGAAACAGTAGGTGAAAGGCTTTTTACCTTCA AGAGAATGTCGTCGTATGTGACGTTGGCGTAAATGAGATGCACCTTTGTCTTGTCTGTTGGGTT TTCTAGAATTGCTCTGGCCACCTTCACAATTAAGAAATATAACGCGTTTAAAACATATACATTG GCTTCAAAAACGATATCAAACGCAAATGTATCAGACATACTTGGAACATGGGAGTGATGCCTGA ACCTCCAGCAAGCATTCCAAATGCCCTAAACTGACCTGGTTGATACTTGAACCTACCCTGACAA GTAAAGGGTAATAAAACAAAAAAAGTTTTGAGATTCAAAAAAAGTATAGAATAACAATGTTGCT TGTGTAAGATCAAGTAAGCAAGACATCTAACTTAAAGGTACCTTTGGTCCCTTTACGGCAAGAT GGTCTCCAACACGCATCTCCCTGAAATGATGAGACATCCGTCCTTGCGGATACATCTATTTGGC AGCATTTTTCGATTGAATTAGGGAGAAGGAACACCCGAATTCAAAAACCAAGTCAAGTTGAGAA AATGTATTTAAGCATATACCTTAATGACAAGTTCGAAACGTCCAACGTCAGAGTCTAACGTAGT CGGGGTGTATGGCTTAATAACATCCTCTCCTTGACCATCCTTTCCCCTATTGAGAAAGTCACGA TACTCATCACAACACATCCATGGAAACTCACTAATTGAATCTCAACACAAAACCTAACCTAAAC TCTCTACAATAATGCATGTTCACAGCCATTTTGGATAGGTTTCAGAATCTAGCAACTGGCAGGA GTGGCGATTGGCGAACAAAACACAGAGAGGATAATAAGAAGTACGAGGACCAAACCTGCAACTG ATGTGTTGTCCAATGGGAAGACCCAACACAGAAGTAGAAGTTGGGAGTTCAAAAACGAACTTGG CCACATTGTGACTAAGCTGATGTCTCTTAACAAGCTTGAACTCCTTGAAATTCTCTGGATCCAA ACACA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.236010531

Conservation Information
Conserved circRNAs	NA
PMCS	0.236010531

			
						 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 AT5G17770_circ_g.2

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