Plant Circular RNA Database

Detail information of AT4G22120_circ_g.4

			
						 General Information
					
						CircRNA Name
						AT4G22120_circ_g.4
					
						ID in PlantcircBase
						ath_circ_032128
					
						Alias
						4:11716639-11719164
					
						Organism
						
							Arabidpsis thaliana						
					
						Position
						
							chr4: 11716639-11719164  JBrowse»						
					
						Reference genome
						
							TAIR10.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						find_circ; CIRI2
					
						Parent gene
						
							AT4G22120						
					
						Parent gene annotation
						
							Hyperosmolality-gated Ca2+ permeable channel 1.2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							AT4G22120_circ_g.2 AT4G22120_circ_g.3 AT4G22120_circ_g.5 AT4G22120_circ_g.6 AT4G22120_circ_g.7 AT4G22120_circ_g.8 AT4G22120_circ_g.9 AT4G22120_circ_g.10 						
					
						Support reads
						2
					
						Tissues
						root
					
						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
						AT4G22120.4:7
AT4G22120.3:7
AT4G22120.5:7
AT4G22120.1:7
AT4G22120.6:7
AT4G22120.2:7

General Information
CircRNA Name	AT4G22120_circ_g.4
ID in PlantcircBase	ath_circ_032128
Alias	4:11716639-11719164
Organism	Arabidpsis thaliana
Position	chr4: 11716639-11719164 JBrowse»
Reference genome	TAIR10.38
Type	ue-circRNA
Identification method	find_circ; CIRI2
Parent gene	AT4G22120
Parent gene annotation	Hyperosmolality-gated Ca2+ permeable channel 1.2
Parent gene strand	-
Alternative splicing	AT4G22120_circ_g.2 AT4G22120_circ_g.3 AT4G22120_circ_g.5 AT4G22120_circ_g.6 AT4G22120_circ_g.7 AT4G22120_circ_g.8 AT4G22120_circ_g.9 AT4G22120_circ_g.10
Support reads	2
Tissues	root
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	AT4G22120.4:7 AT4G22120.3:7 AT4G22120.5:7 AT4G22120.1:7 AT4G22120.6:7 AT4G22120.2:7

			
						 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  
						
							ACCGCAAAGATTATGAAGAAAACAAAGGCACTGAGAATGTTTATCCCAGCTGATACACCAATAT
CCTGAAGTGTCGCCATCTATTAACTAACAATTCAACttggtggcgatatacaatgtaagcaagg
gcgaagaagaccaagataaaaggaagaagcatcggtgtcacaggagcgtagacaagaccgagaa
gaaagtag

									
								

					

						Assembled circRNA sequence  
						
							NA
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
						
							NA						
					

						Genomic sequence
						
							TTGGTGGCGATATACAATGTAAGCAAGGGCGAAGAAGACCAAGATAAAAGGAAGAAGCATCGGT
GTCACAGGAGCGTAGACAAGACCGAGAAGAAAGTAGAGCTGTATCCGAGGCTCACCCGTGTTAA
AACCAATGCTTCCCGGGTCCATTGCTTCCTCTCTGTCTTTATCAGTCTTAACCAAGAAGGCGTT
TTTGAGATGGAACATAATCAATGGTTTCAGCATTAGAATCTCTCCTGCAACTCCTGCCCAACCA
TCAACCATTATATACGTGATGAAGAAAGTTGCTTTCATCGGTATCGCCACACCAATGGTTTTGG
GGATTTGGTTTGCGGATTGATTGAGGAAAGAGTTAAGCTGTTCAAACGCAGCTCCAGCGATAAC
GCTAGCAAGAAAGACGTTCACTAAGTTGAAGATGTAATATCGAAACGCTGCTCGTCTCTCTAAA
GATGAGATCGATGTGAAGCCTTCAAATTTGGACATGATCATCAAAATGGATGGCAGAAAGGCGA
GGAAAAGCTTCAGTGCAATACCCGGAAGGAAACCTTGTATCACCGATTTCATGAATTTACTGCA
TTAAACCAAACAAGTCAGTCCATCATTAGTAATTTTTTCAGGTTATCTGATGTCAAGAAGAGAG
AGAGTAAAGAAGAAAAACTCACTCATCTACAATAAACTTCAAGAACGGAGCAGCTTTCACAATC
CCTTCAATGGTAGCAAGAGATTGAACAAACGCGATGGGGACAATGAAGAAGAAGGTTAGGAAGA
AGAAGGCAACATGCATGATCAACCTCCTTACTGTCAGAGAAACATATGGAATAGCAAGATTTGA
CCAAAACACATCACGCGGTTCTGGAGCCCATTCGGTCAGCCATTGGGTTGGGTTTCGGGTCTGT
TGAGTCTGAGCACAAACCGCAGCAGCCCATCGTGTTTTAAAGGAGACAAACGCTGCTGGCATAA
TGGCCTTAGGATCATTCACCACTTCCTCTCTTTCTTTACTGATCTCTTTTGATATTTTGTCAAT
TTCAGCAATGTAATGTTCAATGGCATCGACTTTTTGTCCCCATAGCCCAAGAAAGCCAAGCTGG
TTGGTGGAGGAAAGCATGGAACGGGTCAGTTTAACAGAACACAAAAAAAAACAAAGTTTGAGAT
TTAAACTGAAGTACCTTCACCATAATTCTCTGAGAGTTATTCCTAGCGTATTTGAGCTGGTAGT
AATCAAGCCAATTCTGCAGCTTTTTCTTCTTTTTCACCAAATCGGCCAGCTTGTTTGCATTGCA
TACAACCTACATATCGTCTCACAATGTTTATGTTGTTCTTACATCTCAAGAAGAGCATAATTTT
AAAGAAAACTAAACGGTTTCAAATTTAAAACTTCTAAGGAACTTGCCTGATGTGTTAGGTAGTG
ATCAGGATGATTGACCAGGAAAAAATGCTCTACCAGTTCACTTACAGATTCATCTGCGTCCGGA
GGTACATTCCTAACAAGGACCTATCACAAATCCCGACGTATTAGATCGTTGGCCACAGCTGTTC
AGTCTTTAAAGTTTAAACCAAGGGGAAGAAAGGAGTCTTACAGTGAACTGGTCAGGTCGACGAG
CTTCTGATGCAACAAACTGGAGCCTCATGTTAGCAATTGTCTCATATTCTTTCATCAGCACATA
ACAAGTCCAGATGGTAAAGGCATAAGCCATTACTATATGAGTCCAAAACCTGGCAAAACATAAA
ATGTAGCTCAAATCTTTACCTGCTACACCATTTGTGACAGATGGAAACATAAAAGACTCAAGAT
GGTAAGGTCTAACACACCTCATTGAATACTCTGGAATATTTGAAACAGAGAGTTTGTCAATGTC
GCTCGAAGTTACATTCCTTAACTGCTTAGCCATCTCCAATGTGTTATTAGTCCAGTTGACTGGC
ACAAGAACTGCCCAAGCAAGCACTGCTATTGGAGTAAAGATCTTAAGCCTGCGCATACAAAGAC
AACAAAAGAGATATGTTTATCAAAATCAATAAGGAGACAACAAAAAGTGGCCCTGAGCTAAACT
TATGTTGACCCTTCCTACTTCCAAAAATAGCAAATAACATACTGACCCTTTTGTTTTTTTGTCA
ATTAGATTCAACTAAGACTAAATCAACCAATACACACACAAACCCATAAACCAAATAATCTACA
AAGTTCAAAACTTTACCCCAGCCAGTAAATCCGGAGATAAACAACTGAATCCAAACCAGCATGA
TCAATAAGCTCAGGCTCAGGCATCTTCAGAGCCTCTGGCATCCAATTCAAGAACTTCATATAAG
ACCTGAAGTCCAGGTTCACAAACCTCTGCGCAAAGGCGCCACCACGAGCAGGGCTGCTTCTTAA
CCCCTTGAGATACCATTTTGAGAAGTAAACTCTATCATTGAAAGGCTGAAGCCTCAAAACCGCA
AAGATTATGAAGAAAACAAAGGCACTGAGAATGTTTATCCCAGCTGATACACCAATATCCTGAA
GTGTCGCCATCTATTAACTAACAATTCAAC
						
					

			
		

Sequences
Splice junction sequence	ACCGCAAAGATTATGAAGAAAACAAAGGCACTGAGAATGTTTATCCCAGCTGATACACCAATAT CCTGAAGTGTCGCCATCTATTAACTAACAATTCAACttggtggcgatatacaatgtaagcaagg gcgaagaagaccaagataaaaggaagaagcatcggtgtcacaggagcgtagacaagaccgagaa gaaagtag
Assembled circRNA sequence	NA 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	NA
Genomic sequence	TTGGTGGCGATATACAATGTAAGCAAGGGCGAAGAAGACCAAGATAAAAGGAAGAAGCATCGGT GTCACAGGAGCGTAGACAAGACCGAGAAGAAAGTAGAGCTGTATCCGAGGCTCACCCGTGTTAA AACCAATGCTTCCCGGGTCCATTGCTTCCTCTCTGTCTTTATCAGTCTTAACCAAGAAGGCGTT TTTGAGATGGAACATAATCAATGGTTTCAGCATTAGAATCTCTCCTGCAACTCCTGCCCAACCA TCAACCATTATATACGTGATGAAGAAAGTTGCTTTCATCGGTATCGCCACACCAATGGTTTTGG GGATTTGGTTTGCGGATTGATTGAGGAAAGAGTTAAGCTGTTCAAACGCAGCTCCAGCGATAAC GCTAGCAAGAAAGACGTTCACTAAGTTGAAGATGTAATATCGAAACGCTGCTCGTCTCTCTAAA GATGAGATCGATGTGAAGCCTTCAAATTTGGACATGATCATCAAAATGGATGGCAGAAAGGCGA GGAAAAGCTTCAGTGCAATACCCGGAAGGAAACCTTGTATCACCGATTTCATGAATTTACTGCA TTAAACCAAACAAGTCAGTCCATCATTAGTAATTTTTTCAGGTTATCTGATGTCAAGAAGAGAG AGAGTAAAGAAGAAAAACTCACTCATCTACAATAAACTTCAAGAACGGAGCAGCTTTCACAATC CCTTCAATGGTAGCAAGAGATTGAACAAACGCGATGGGGACAATGAAGAAGAAGGTTAGGAAGA AGAAGGCAACATGCATGATCAACCTCCTTACTGTCAGAGAAACATATGGAATAGCAAGATTTGA CCAAAACACATCACGCGGTTCTGGAGCCCATTCGGTCAGCCATTGGGTTGGGTTTCGGGTCTGT TGAGTCTGAGCACAAACCGCAGCAGCCCATCGTGTTTTAAAGGAGACAAACGCTGCTGGCATAA TGGCCTTAGGATCATTCACCACTTCCTCTCTTTCTTTACTGATCTCTTTTGATATTTTGTCAAT TTCAGCAATGTAATGTTCAATGGCATCGACTTTTTGTCCCCATAGCCCAAGAAAGCCAAGCTGG TTGGTGGAGGAAAGCATGGAACGGGTCAGTTTAACAGAACACAAAAAAAAACAAAGTTTGAGAT TTAAACTGAAGTACCTTCACCATAATTCTCTGAGAGTTATTCCTAGCGTATTTGAGCTGGTAGT AATCAAGCCAATTCTGCAGCTTTTTCTTCTTTTTCACCAAATCGGCCAGCTTGTTTGCATTGCA TACAACCTACATATCGTCTCACAATGTTTATGTTGTTCTTACATCTCAAGAAGAGCATAATTTT AAAGAAAACTAAACGGTTTCAAATTTAAAACTTCTAAGGAACTTGCCTGATGTGTTAGGTAGTG ATCAGGATGATTGACCAGGAAAAAATGCTCTACCAGTTCACTTACAGATTCATCTGCGTCCGGA GGTACATTCCTAACAAGGACCTATCACAAATCCCGACGTATTAGATCGTTGGCCACAGCTGTTC AGTCTTTAAAGTTTAAACCAAGGGGAAGAAAGGAGTCTTACAGTGAACTGGTCAGGTCGACGAG CTTCTGATGCAACAAACTGGAGCCTCATGTTAGCAATTGTCTCATATTCTTTCATCAGCACATA ACAAGTCCAGATGGTAAAGGCATAAGCCATTACTATATGAGTCCAAAACCTGGCAAAACATAAA ATGTAGCTCAAATCTTTACCTGCTACACCATTTGTGACAGATGGAAACATAAAAGACTCAAGAT GGTAAGGTCTAACACACCTCATTGAATACTCTGGAATATTTGAAACAGAGAGTTTGTCAATGTC GCTCGAAGTTACATTCCTTAACTGCTTAGCCATCTCCAATGTGTTATTAGTCCAGTTGACTGGC ACAAGAACTGCCCAAGCAAGCACTGCTATTGGAGTAAAGATCTTAAGCCTGCGCATACAAAGAC AACAAAAGAGATATGTTTATCAAAATCAATAAGGAGACAACAAAAAGTGGCCCTGAGCTAAACT TATGTTGACCCTTCCTACTTCCAAAAATAGCAAATAACATACTGACCCTTTTGTTTTTTTGTCA ATTAGATTCAACTAAGACTAAATCAACCAATACACACACAAACCCATAAACCAAATAATCTACA AAGTTCAAAACTTTACCCCAGCCAGTAAATCCGGAGATAAACAACTGAATCCAAACCAGCATGA TCAATAAGCTCAGGCTCAGGCATCTTCAGAGCCTCTGGCATCCAATTCAAGAACTTCATATAAG ACCTGAAGTCCAGGTTCACAAACCTCTGCGCAAAGGCGCCACCACGAGCAGGGCTGCTTCTTAA CCCCTTGAGATACCATTTTGAGAAGTAAACTCTATCATTGAAAGGCTGAAGCCTCAAAACCGCA AAGATTATGAAGAAAACAAAGGCACTGAGAATGTTTATCCCAGCTGATACACCAATATCCTGAA GTGTCGCCATCTATTAACTAACAATTCAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.232703394

Conservation Information
Conserved circRNAs	NA
PMCS	0.232703394

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

			
						 Other Information
					
						References
						Philips et al., 2020

circRNA

Detail information of AT4G22120_circ_g.4

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