Plant Circular RNA Database

Detail information of AT1G17370_circ_g.3

			
						 General Information
					
						CircRNA Name
						AT1G17370_circ_g.3
					
						ID in PlantcircBase
						ath_circ_003070
					
						Alias
						NA
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr1: 5952208-5953842  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplorer, PcircRNA_finder
					
						Parent gene
						
							AT1G17370						
					
						Parent gene annotation
						
							Oligouridylate-binding protein 1B
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT1G17370_circ_g.1 AT1G17370_circ_g.2 AT1G17370_circ_g.4 AT1G17370_circ_g.5 						
					
						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
						AT1G17370.2:9
AT1G17370.1:9

General Information
CircRNA Name	AT1G17370_circ_g.3
ID in PlantcircBase	ath_circ_003070
Alias	NA
Organism	Arabidpsis thaliana
Position	chr1: 5952208-5953842 JBrowse»
Reference genome	TAIR10.38
Type	e-circRNA
Identification method	CIRCexplorer, PcircRNA_finder
Parent gene	AT1G17370
Parent gene annotation	Oligouridylate-binding protein 1B
Parent gene strand	-
Alternative splicing	AT1G17370_circ_g.1 AT1G17370_circ_g.2 AT1G17370_circ_g.4 AT1G17370_circ_g.5
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	AT1G17370.2:9 AT1G17370.1:9

			
						 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  
						
							TTCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAAAACCTCTTGAAGCAGA
GGTTCCGTCACCTGAATATGGATGTTTCCAACGTACcttcatttgcctgccactaaggtaggaa
tgtgtgtttcccatctgaatagcgagggctgcctctacatgagtagagtatctcacaaatccga
aacctttg

									
								

					

						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: 811
Transcript exons: 5952208-5952384,5952475-5952558,5952686-5952798,5952912-
5952942,5953035-5953110,5953203-5953290,5953385-5953446,
5953547-5953623,5953740-5953842
CTTCATTTGCCTGCCACTAAGGTAGGAATGTGTGTTTCCCATCTGAATAGCGAGGGCTGCCTCT
ACATGAGTAGAGTATCTCACAAATCCGAAACCTTTGTCTCTTTGAACACGGACTTCCTCTATGA
CCCCAGCACCAAGGGAATGGAAGTGGCGGTGAAGATCAACCTGGGACACCTCTGGAGCAAGATT
ACCGACGTAAACAGTTGTGTACTGAGCATTGTTCTCAGGAGCTTCACCATTAGTAGTATCTTTA
CCATCACCACTGGTAAGTTCCACGACGCTTTTGGAATCAGAGCTCTGTTTGTCCTCACCAGAAG
TGGCTCCCTTTGTCGCCCAGTTGCAACGTATCTGCCTGGAACCAAGCCATTTCCCAGTTATCTC
ATCTATTGCAGTCTGGGCATCCTGTTGGTTACGGAAGGAAACAAATCCAAATCCTCTTGAACGC
CCAGTTTTCTGATCCCACATAACTCTTGCATCCGAGCAAGTCGGGTAGACAGAGAAGCAAGTAA
ACAGCATTGCATCAGTAACCTCCGGACTCAAATCCCCAACAAATATATTGAAGTGACTTGATGT
ATCCTCCCTCTGGCCACTCGCATAAGCCCAGTTAACCTTGATAGGTTGCCCAAACAAATGCCTT
CCATTGAGAGAAAGGATTGCAAGACCAGCCGATCTTCGATCAAAGTAGTGCACAAACCCATAAG
AAGACTTTTCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAAAACCTCTTG
AAGCAGAGGTTCCGTCACCTGAATATGGATGTTTCCAACGTAC
Transcript length: 820
Transcript exons: 5952208-5952384,5952475-5952560,5952679-5952798,5952912-
5952942,5953035-5953110,5953203-5953290,5953385-5953446,
5953547-5953623,5953740-5953842
CTTCATTTGCCTGCCACTAAGGTAGGAATGTGTGTTTCCCATCTGAATAGCGAGGGCTGCCTCT
ACATGAGTAGAGTATCTCACAAATCCGAAACCTTTGTCTCTTTGAACACGGACTTCCTCTATGA
CCCCAGCACCAAGGGAATGGAAGTGGCGGTGAAGATCAACCTGGGACACCTCTGGAGCAAGATT
ACCGACGTAAACAGTTGTGTACTGAGCATTGTTCTCAGGAGCTTCACCATTAGTAGTATCTTTA
CCATCCTCCGAGACACCACTGGTAAGTTCCACGACGCTTTTGGAATCAGAGCTCTGTTTGTCCT
CACCAGAAGTGGCTCCCTTTGTCGCCCAGTTGCAACGTATCTGCCTGGAACCAAGCCATTTCCC
AGTTATCTCATCTATTGCAGTCTGGGCATCCTGTTGGTTACGGAAGGAAACAAATCCAAATCCT
CTTGAACGCCCAGTTTTCTGATCCCACATAACTCTTGCATCCGAGCAAGTCGGGTAGACAGAGA
AGCAAGTAAACAGCATTGCATCAGTAACCTCCGGACTCAAATCCCCAACAAATATATTGAAGTG
ACTTGATGTATCCTCCCTCTGGCCACTCGCATAAGCCCAGTTAACCTTGATAGGTTGCCCAAAC
AAATGCCTTCCATTGAGAGAAAGGATTGCAAGACCAGCCGATCTTCGATCAAAGTAGTGCACAA
ACCCATAAGAAGACTTTTCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAA
AACCTCTTGAAGCAGAGGTTCCGTCACCTGAATATGGATGTTTCCAACGTAC
						
					

						Genomic sequence
						
							CTTCATTTGCCTGCCACTAAGGTAGGAATGTGTGTTTCCCATCTGAATAGCGAGGGCTGCCTCT
ACATGAGTAGAGTATCTCACAAATCCGAAACCTTTGTCTCTTTGAACACGGACTTCCTCTATGA
CCCCAGCACCAAGGGAATGGAAGTGGCGGTGAAGATCAACCTGGGACACCTGGATAACGAAAAT
ATCTTTGATTCAAAAAAGGTATGGATGATGGTTGAGTTAAGTCACAGAATACCTATAACAGTTT
TTCTATTTTACCTCTGGAGCAAGATTACCGACGTAAACAGTTGTGTACTGAGCATTGTTCTCAG
GAGCTTCACCATTAGTAGTATCTTTACCATCCTCTGCAGGAACAAATAAGCCAATGTATAAACA
TCAAAGGGTTAAGAATTAAGTTTATTTGAGGCTTTTCTCTATTTCCATTTGATTTTCTATTTCA
TGATAGGTAATAGTTAAACATACCCGAGACACCACTGGTAAGTTCCACGACGCTTTTGGAATCA
GAGCTCTGTTTGTCCTCACCAGAAGTGGCTCCCTTTGTCGCCCAGTTGCAACGTATCTGCCTGG
AACCAAGCCATTTCCCTGAAAAGCAGAAGAGAATCTCCCACCAATTACAATAAGCTCAAAAACA
CAAAGCTAAAATAACAAAATATTAACATCAACTATCAAGGGGGAAAACAAATTGCAACACTCAC
CAGTTATCTCATCTATTGCAGTCTGGGCATCCTGCATAAGGAAATAAGATTTGCAGCAATCGAT
CAGTGTTTAAAGTAAAAGCCAATCTATACACAAGGACTGAGAGTTAGACAGTCAAGTACCTGTT
GGTTACGGAAGGAAACAAATCCAAATCCTCTTGAACGCCCAGTTTTCTGATCCCACATAACTCT
TGCATCCCTACATACAATAGCAATTGTCGGAAGAGTTTCTGCAAATCTTAAACTTCCATTTCCA
ATACAAGAATGCTGAGGATGGTATAAAAAACTTACGAGCAAGTCGGGTAGACAGAGAAGCAAGT
AAACAGCATTGCATCAGTAACCTCCGGACTCAAATCCCCAACAAATATATTGAAGTGACCTGCA
CATGAAGATCACAGAAGTGCGTTATTGTATCAATAGAACACCCAAAATACTGTTTTAGCAAGAA
ATCAAGCATAAGATTGTGAACCAACTTGATGTATCCTCCCTCTGGCCACTCGCATAAGCCCAGT
TAACCTTGATAGGTTGCCCAAACCTGCACATTAGAGTAAACAATGTAATCCAAAACTTGGAAAA
CAGAGTATCTTGTTCATGCTAAAATGCCCAAAGGCTAATAATCATGTCCATTAACTTACAAATG
CCTTCCATTGAGAGAAAGGATTGCAAGACCAGCCGATCTTCGATCAAAGTAGTGCACAAACCCA
TAAGAAGACTGCATCAGATAAATGTGTCAATCATAGCCAATACCAAAAGCAAAAGTTTCAACAT
AAAAGATTAAACATCCTGAAGATTACTACTAGAATGTTATAAAAGTGTAACATAACACACCTTT
TCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAAAACCTCTTGAAGCAGAG
GTTCCGTCACCTGAATATGGATGTTTCCAACGTAC
						
					

			
		

Sequences
Splice junction sequence	TTCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAAAACCTCTTGAAGCAGA GGTTCCGTCACCTGAATATGGATGTTTCCAACGTACcttcatttgcctgccactaaggtaggaa tgtgtgtttcccatctgaatagcgagggctgcctctacatgagtagagtatctcacaaatccga aacctttg
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: 811 Transcript exons: 5952208-5952384,5952475-5952558,5952686-5952798,5952912- 5952942,5953035-5953110,5953203-5953290,5953385-5953446, 5953547-5953623,5953740-5953842 CTTCATTTGCCTGCCACTAAGGTAGGAATGTGTGTTTCCCATCTGAATAGCGAGGGCTGCCTCT ACATGAGTAGAGTATCTCACAAATCCGAAACCTTTGTCTCTTTGAACACGGACTTCCTCTATGA CCCCAGCACCAAGGGAATGGAAGTGGCGGTGAAGATCAACCTGGGACACCTCTGGAGCAAGATT ACCGACGTAAACAGTTGTGTACTGAGCATTGTTCTCAGGAGCTTCACCATTAGTAGTATCTTTA CCATCACCACTGGTAAGTTCCACGACGCTTTTGGAATCAGAGCTCTGTTTGTCCTCACCAGAAG TGGCTCCCTTTGTCGCCCAGTTGCAACGTATCTGCCTGGAACCAAGCCATTTCCCAGTTATCTC ATCTATTGCAGTCTGGGCATCCTGTTGGTTACGGAAGGAAACAAATCCAAATCCTCTTGAACGC CCAGTTTTCTGATCCCACATAACTCTTGCATCCGAGCAAGTCGGGTAGACAGAGAAGCAAGTAA ACAGCATTGCATCAGTAACCTCCGGACTCAAATCCCCAACAAATATATTGAAGTGACTTGATGT ATCCTCCCTCTGGCCACTCGCATAAGCCCAGTTAACCTTGATAGGTTGCCCAAACAAATGCCTT CCATTGAGAGAAAGGATTGCAAGACCAGCCGATCTTCGATCAAAGTAGTGCACAAACCCATAAG AAGACTTTTCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAAAACCTCTTG AAGCAGAGGTTCCGTCACCTGAATATGGATGTTTCCAACGTAC Transcript length: 820 Transcript exons: 5952208-5952384,5952475-5952560,5952679-5952798,5952912- 5952942,5953035-5953110,5953203-5953290,5953385-5953446, 5953547-5953623,5953740-5953842 CTTCATTTGCCTGCCACTAAGGTAGGAATGTGTGTTTCCCATCTGAATAGCGAGGGCTGCCTCT ACATGAGTAGAGTATCTCACAAATCCGAAACCTTTGTCTCTTTGAACACGGACTTCCTCTATGA CCCCAGCACCAAGGGAATGGAAGTGGCGGTGAAGATCAACCTGGGACACCTCTGGAGCAAGATT ACCGACGTAAACAGTTGTGTACTGAGCATTGTTCTCAGGAGCTTCACCATTAGTAGTATCTTTA CCATCCTCCGAGACACCACTGGTAAGTTCCACGACGCTTTTGGAATCAGAGCTCTGTTTGTCCT CACCAGAAGTGGCTCCCTTTGTCGCCCAGTTGCAACGTATCTGCCTGGAACCAAGCCATTTCCC AGTTATCTCATCTATTGCAGTCTGGGCATCCTGTTGGTTACGGAAGGAAACAAATCCAAATCCT CTTGAACGCCCAGTTTTCTGATCCCACATAACTCTTGCATCCGAGCAAGTCGGGTAGACAGAGA AGCAAGTAAACAGCATTGCATCAGTAACCTCCGGACTCAAATCCCCAACAAATATATTGAAGTG ACTTGATGTATCCTCCCTCTGGCCACTCGCATAAGCCCAGTTAACCTTGATAGGTTGCCCAAAC AAATGCCTTCCATTGAGAGAAAGGATTGCAAGACCAGCCGATCTTCGATCAAAGTAGTGCACAA ACCCATAAGAAGACTTTTCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAA AACCTCTTGAAGCAGAGGTTCCGTCACCTGAATATGGATGTTTCCAACGTAC
Genomic sequence	CTTCATTTGCCTGCCACTAAGGTAGGAATGTGTGTTTCCCATCTGAATAGCGAGGGCTGCCTCT ACATGAGTAGAGTATCTCACAAATCCGAAACCTTTGTCTCTTTGAACACGGACTTCCTCTATGA CCCCAGCACCAAGGGAATGGAAGTGGCGGTGAAGATCAACCTGGGACACCTGGATAACGAAAAT ATCTTTGATTCAAAAAAGGTATGGATGATGGTTGAGTTAAGTCACAGAATACCTATAACAGTTT TTCTATTTTACCTCTGGAGCAAGATTACCGACGTAAACAGTTGTGTACTGAGCATTGTTCTCAG GAGCTTCACCATTAGTAGTATCTTTACCATCCTCTGCAGGAACAAATAAGCCAATGTATAAACA TCAAAGGGTTAAGAATTAAGTTTATTTGAGGCTTTTCTCTATTTCCATTTGATTTTCTATTTCA TGATAGGTAATAGTTAAACATACCCGAGACACCACTGGTAAGTTCCACGACGCTTTTGGAATCA GAGCTCTGTTTGTCCTCACCAGAAGTGGCTCCCTTTGTCGCCCAGTTGCAACGTATCTGCCTGG AACCAAGCCATTTCCCTGAAAAGCAGAAGAGAATCTCCCACCAATTACAATAAGCTCAAAAACA CAAAGCTAAAATAACAAAATATTAACATCAACTATCAAGGGGGAAAACAAATTGCAACACTCAC CAGTTATCTCATCTATTGCAGTCTGGGCATCCTGCATAAGGAAATAAGATTTGCAGCAATCGAT CAGTGTTTAAAGTAAAAGCCAATCTATACACAAGGACTGAGAGTTAGACAGTCAAGTACCTGTT GGTTACGGAAGGAAACAAATCCAAATCCTCTTGAACGCCCAGTTTTCTGATCCCACATAACTCT TGCATCCCTACATACAATAGCAATTGTCGGAAGAGTTTCTGCAAATCTTAAACTTCCATTTCCA ATACAAGAATGCTGAGGATGGTATAAAAAACTTACGAGCAAGTCGGGTAGACAGAGAAGCAAGT AAACAGCATTGCATCAGTAACCTCCGGACTCAAATCCCCAACAAATATATTGAAGTGACCTGCA CATGAAGATCACAGAAGTGCGTTATTGTATCAATAGAACACCCAAAATACTGTTTTAGCAAGAA ATCAAGCATAAGATTGTGAACCAACTTGATGTATCCTCCCTCTGGCCACTCGCATAAGCCCAGT TAACCTTGATAGGTTGCCCAAACCTGCACATTAGAGTAAACAATGTAATCCAAAACTTGGAAAA CAGAGTATCTTGTTCATGCTAAAATGCCCAAAGGCTAATAATCATGTCCATTAACTTACAAATG CCTTCCATTGAGAGAAAGGATTGCAAGACCAGCCGATCTTCGATCAAAGTAGTGCACAAACCCA TAAGAAGACTGCATCAGATAAATGTGTCAATCATAGCCAATACCAAAAGCAAAAGTTTCAACAT AAAAGATTAAACATCCTGAAGATTACTACTAGAATGTTATAAAAGTGTAACATAACACACCTTT TCTTTCCTAATTAGTTTACAGCTTTCTACAGGACCAGTGCCAGCAAAAACCTCTTGAAGCAGAG GTTCCGTCACCTGAATATGGATGTTTCCAACGTAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.266221679

Conservation Information
Conserved circRNAs	NA
PMCS	0.266221679

			
						 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

circRNA

Detail information of AT1G17370_circ_g.3

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