Plant Circular RNA Database

Detail information of Zm00001d026337_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d026337_circ_g.1
					
						ID in PlantcircBase
						zma_circ_000133
					
						Alias
						NA
					
						Organism
						
							Zea mays						
					
						Position
						
							chr10: 143791990-143795446  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Zm00001d026337						
					
						Parent gene annotation
						
							Starch synthase IIIb-1  
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d026337_circ_g.2 						
					
						Support reads
						4
					
						Tissues
						shoot
					
						Exon boundary  
						
							No-No							"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  
						
							AC-TA							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
						Zm00001d026337_T015:6
Zm00001d026337_T007:6
Zm00001d026337_T004:6
Zm00001d026337_T019:6
Zm00001d026337_T014:6
Zm00001d026337_T021:4
Zm00001d026337_T013:6
Zm00001d026337_T008:5
Zm00001d026337_T017:6
Zm00001d026337_T012:6
Zm00001d026337_T018:2
Zm00001d026337_T006:6
Zm00001d026337_T020:6
Zm00001d026337_T009:6
Zm00001d026337_T011:6

General Information
CircRNA Name	Zm00001d026337_circ_g.1
ID in PlantcircBase	zma_circ_000133
Alias	NA
Organism	Zea mays
Position	chr10: 143791990-143795446 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	SMALT, Segemehl
Parent gene	Zm00001d026337
Parent gene annotation	Starch synthase IIIb-1
Parent gene strand	-
Alternative splicing	Zm00001d026337_circ_g.2
Support reads	4
Tissues	shoot
Exon boundary	No-No "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	AC-TA 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	Zm00001d026337_T015:6 Zm00001d026337_T007:6 Zm00001d026337_T004:6 Zm00001d026337_T019:6 Zm00001d026337_T014:6 Zm00001d026337_T021:4 Zm00001d026337_T013:6 Zm00001d026337_T008:5 Zm00001d026337_T017:6 Zm00001d026337_T012:6 Zm00001d026337_T018:2 Zm00001d026337_T006:6 Zm00001d026337_T020:6 Zm00001d026337_T009:6 Zm00001d026337_T011:6

			
						 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  
						
							GCAGTGAGATTGCTGTAACCAGAATCATTCCTCAAACCTGAACTTGATACCATGCATCGAACGA
GCCCGCCTCTCGTAAATCTGCTGCACCTTACGACAGcactgcttaggattaaacaatcatactt
cggcagaataacctcaactttatggcctaaatcctgaacagctcgtgaaaggcttgtaacaaca
tcaccaag

									
								

					

						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
						
							CACTGCTTAGGATTAAACAATCATACTTCGGCAGAATAACCTCAACTTTATGGCCTAAATCCTG
AACAGCTCGTGAAAGGCTTGTAACAACATCACCAAGGCCTCCAACCTGTGTTGATTGATATTGG
TAGTTGTCAAGTAGTATCATCATTTGTGTCACAAAATATAAAATGTAAATCTACCTTTGCGATA
GGAGCCATTTCCACTGCAATGTGCACAATATGCATTGGAGGTTCCCTTGCAACCGAATCAGACA
CAGGAATATGATAATCCATCCCATTCCTATTGTCATATCTTCCACCTTCTTCCGACTCAGAGAA
AACAAAGTCCATCATATATGCATCCAGGGGAACACTGACTGGGAAAAAACAAACAAATAAATTA
GAGAGAACTCAGAGAAGGACATCAGTAAACATTGACCAATATTGGCAACAGTGATTCAACAATG
TGATGAACATGAATTCAAAAGGTTTGAGGAAAATAAAAGTCTGTTTTAGTTTTAGCTCGATAAC
ATATGCACATGCCTACAATATCCCTTCTGATAACCAGGGAAGATGCGAGTATTAGATCACATAT
TTACTTGTTTGTATTTCCTCATAGTTCAGGACTGCGGAGGGTTCCATACATGTGTACAAATAGA
TTGCTTGTATATTTGGCCCTTACGATTATCACAATACACACACACACATATTATTGGCTCTTAG
AGCTACTGTTAACAGTGAGGAGTTTGAAGTGCTGAAGAGTTTTCAAACCCTAGATTTATAGAGA
CATATCCAATACCAAAATATACCAACTAGTTCAACCATACAGGATAGATTACACAAGTAGCTTA
GGGTAAAAAAATACTTTTGAAGGCCACCTAGAAATACTTGATAGATAGTAATATTAATTATATA
AAAATTTGTCCATGAAAAAGTTGCAATATGTTGTATTTTTTGCACACCTGTTGTTCGTAAGTGT
GAACTATTCTCAGCCTTTACCATCTTCTGTGGTGGTAAGGGACCACTTGGATGAGTCCAACGGT
TAAAGGAACCTCTGAACCAAACCTCTGACTTTCCATTCAGCACTGTGTTAGAAGGATTATAAAG
AACGTCCACAGTGGTTCCTGCACGTACTTCGAGTGGCTCAGTATACACAATATGTTTTTGTGAG
AGCAGAAACGCTCTCATAGTCTTTTCCTTCATCTCAGCCTTCATTTTTGCAGATCTCTCAGCCT
ATTGGGGGAAACAAAGCAACAATGAATTCGCCTTTATTGACAGTTCTGTAGTTGAAAGAGTGCC
AAAAGGATTGCTTCTTTCTTGTTTGATAAGTATCAAGGTTACTAGGTACAACTAAGCATTGCTC
CTAGTATATATAAAGTCTATTATGAGCTAACCTTTATTCTTTCGGCACTCTCCCTTTCTCTTCT
CTCTTGTTGAAGCCTTGTAAAGATCCTATGTTCTTCTTCCACCCAAAAGATATCATCCGATATG
TTATTAGGAACGATGGCATGAAAATCCTGCCTTCCATTGTTATCATAATTCCATGCATTCCCAG
GTGGTCCATCAGCAAAAACCCAATCCAACACCAATGCCCTTTCAGGTAATGTAACTATATACAT
GTCATGAAGTCAAAAGTAAGATTTATGCATAACAGACAAAAGAGCAACTAAACTCCAAAGATCA
AGCAAATGACAGATCTTCAGATTCATTCATGAGATAAGTATGTACTTAAAGATACAACCTTCAG
TAGGTAACTTATAGGCATAAGGATTTCAGGCTACCATACCTCTTTTATGCATTCAACAATTTGT
AAATGAATAGAAAGGGTAACATAAATCCTAAGGTACGAAAAAAGTAACTATGTGTACCTTCTAC
ATACCACCAATCGCCTTCCTTTTCATGAGATTTGACAAGTCTTTCAGCTATTGAGAGTCCATCA
ATCCAGTTGTTATAACCTCCATGCATCCAAATCTCAGTGTTATGCATTAGTGATCTCGAGCTTC
TATTATAGTACAATCTAACTCTGTCTCCTCCTCTGTAGGTGTTAGGTTCTATGTACCATAAGTT
CTCAGCATATCTGCTAGCCGAACTCAACATCTGGCGCAATTTCTCTTTCTTCATCTCGACCTCA
GACCTTGCTTGTGCCCTGTCAGCTTCCATCGCGGCCCTTTCTTCCTCTCTCCTGTGCCGCTCCT
CAGCTTGTCTTTTCCTTTCAGCTTCTTCTGCAGCAAGCCTCTCGAGTTCCTTTCGCTTTTCTTC
AACCAAGAAGTCCTCAAATGAGTGTTCATCTATGTCACTTTCTATTTCCAGGAAAAAATCGTTG
TGATTGTTATTTTCATAGACAGTGTCACCGTTAAAGAATACAAAGTCTAGTCTGTATGCCTGCT
TGGGAATGTAGAGCTTGCAGCACCACCAATCCCCTCTTAATTCGCTTCTATGCATTGTTTCAGT
GAAACGGTTCCATCTCCAACCATTGAATGCTCCTTTTACAAAAACGTCGGACTCACTAGCTAAG
GCCGACATGCTGCGGTTTAAGTAAAGATCAATCATCGAATCAGCCTTCACTACTTCAGGGAAAA
CAAAACAGTTGTTCCCAGTCGAATAATTCTCATCAGCAAGCTCTTGAAGCCTCCTCAGTAGCAC
TTCTGGATCATCTTCAGATACCGGAAGCTCTTCATCTGCGTCTGTACTTATCCCGACATCATCT
TCTAACGAGACAGCTTGCCCTTCCTCATTCTCGCTGCTTGCCTTTCCTGCTGCTGATTCAGTAA
AATCCTTATGACCCACAACGGCCTCAGCAAATAGCCTGCCTTTTGTTGGTGCATCAACAATTGA
ACTGCCATGTTCCTCAGAACCAGTTATTGGTTCGTGCTGGCCGTGAAAACCGCCAACTGATTCG
TTTTGTCCAGCAACACTTGCAAGTGACGAAGGTTCAGGTTTGGAACTTACTAGAGCACTTATTT
TACCACGGTACTCATCAAGTTGCCGGTCGATTGAGTCATCATCCATGGACGCGGAAGGCAACGC
TGAAGATTGATTTTGGTCAGCCTCTTCTTCGGTACCAGCTCCGTCCCTTTCTGCGCCACTTAAA
ATGTCTCCTGTCATGTAAACCTGAGACGATTCTTCAGCAGTACTTGCCTGCTCTGCTGCCTCGC
CATAGAGTGACCCATTGGCTCTGCTGAAATCACCTTCATTGTTCCTGCTCTGTTCTATCTTCTT
CGTACTGGATTCAGCAGTAGGTCTCGAAGCATACCCTCCAGAGGCAACGCCCTTGCTCTTAGAA
GTCGATGCCCTCCTCGGATTCCTCTTGGGATAATCTGAGTAACGCAATGTCAGGAAGAAAGAAA
AAACAAGAAACATGAGCTAAGCAGTAGGAGCAGTGAGATTGCTGTAACCAGAATCATTCCTCAA
ACCTGAACTTGATACCATGCATCGAACGAGCCCGCCTCTCGTAAATCTGCTGCACCTTACGACA
G
						
					

			
		

Sequences
Splice junction sequence	GCAGTGAGATTGCTGTAACCAGAATCATTCCTCAAACCTGAACTTGATACCATGCATCGAACGA GCCCGCCTCTCGTAAATCTGCTGCACCTTACGACAGcactgcttaggattaaacaatcatactt cggcagaataacctcaactttatggcctaaatcctgaacagctcgtgaaaggcttgtaacaaca tcaccaag
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	CACTGCTTAGGATTAAACAATCATACTTCGGCAGAATAACCTCAACTTTATGGCCTAAATCCTG AACAGCTCGTGAAAGGCTTGTAACAACATCACCAAGGCCTCCAACCTGTGTTGATTGATATTGG TAGTTGTCAAGTAGTATCATCATTTGTGTCACAAAATATAAAATGTAAATCTACCTTTGCGATA GGAGCCATTTCCACTGCAATGTGCACAATATGCATTGGAGGTTCCCTTGCAACCGAATCAGACA CAGGAATATGATAATCCATCCCATTCCTATTGTCATATCTTCCACCTTCTTCCGACTCAGAGAA AACAAAGTCCATCATATATGCATCCAGGGGAACACTGACTGGGAAAAAACAAACAAATAAATTA GAGAGAACTCAGAGAAGGACATCAGTAAACATTGACCAATATTGGCAACAGTGATTCAACAATG TGATGAACATGAATTCAAAAGGTTTGAGGAAAATAAAAGTCTGTTTTAGTTTTAGCTCGATAAC ATATGCACATGCCTACAATATCCCTTCTGATAACCAGGGAAGATGCGAGTATTAGATCACATAT TTACTTGTTTGTATTTCCTCATAGTTCAGGACTGCGGAGGGTTCCATACATGTGTACAAATAGA TTGCTTGTATATTTGGCCCTTACGATTATCACAATACACACACACACATATTATTGGCTCTTAG AGCTACTGTTAACAGTGAGGAGTTTGAAGTGCTGAAGAGTTTTCAAACCCTAGATTTATAGAGA CATATCCAATACCAAAATATACCAACTAGTTCAACCATACAGGATAGATTACACAAGTAGCTTA GGGTAAAAAAATACTTTTGAAGGCCACCTAGAAATACTTGATAGATAGTAATATTAATTATATA AAAATTTGTCCATGAAAAAGTTGCAATATGTTGTATTTTTTGCACACCTGTTGTTCGTAAGTGT GAACTATTCTCAGCCTTTACCATCTTCTGTGGTGGTAAGGGACCACTTGGATGAGTCCAACGGT TAAAGGAACCTCTGAACCAAACCTCTGACTTTCCATTCAGCACTGTGTTAGAAGGATTATAAAG AACGTCCACAGTGGTTCCTGCACGTACTTCGAGTGGCTCAGTATACACAATATGTTTTTGTGAG AGCAGAAACGCTCTCATAGTCTTTTCCTTCATCTCAGCCTTCATTTTTGCAGATCTCTCAGCCT ATTGGGGGAAACAAAGCAACAATGAATTCGCCTTTATTGACAGTTCTGTAGTTGAAAGAGTGCC AAAAGGATTGCTTCTTTCTTGTTTGATAAGTATCAAGGTTACTAGGTACAACTAAGCATTGCTC CTAGTATATATAAAGTCTATTATGAGCTAACCTTTATTCTTTCGGCACTCTCCCTTTCTCTTCT CTCTTGTTGAAGCCTTGTAAAGATCCTATGTTCTTCTTCCACCCAAAAGATATCATCCGATATG TTATTAGGAACGATGGCATGAAAATCCTGCCTTCCATTGTTATCATAATTCCATGCATTCCCAG GTGGTCCATCAGCAAAAACCCAATCCAACACCAATGCCCTTTCAGGTAATGTAACTATATACAT GTCATGAAGTCAAAAGTAAGATTTATGCATAACAGACAAAAGAGCAACTAAACTCCAAAGATCA AGCAAATGACAGATCTTCAGATTCATTCATGAGATAAGTATGTACTTAAAGATACAACCTTCAG TAGGTAACTTATAGGCATAAGGATTTCAGGCTACCATACCTCTTTTATGCATTCAACAATTTGT AAATGAATAGAAAGGGTAACATAAATCCTAAGGTACGAAAAAAGTAACTATGTGTACCTTCTAC ATACCACCAATCGCCTTCCTTTTCATGAGATTTGACAAGTCTTTCAGCTATTGAGAGTCCATCA ATCCAGTTGTTATAACCTCCATGCATCCAAATCTCAGTGTTATGCATTAGTGATCTCGAGCTTC TATTATAGTACAATCTAACTCTGTCTCCTCCTCTGTAGGTGTTAGGTTCTATGTACCATAAGTT CTCAGCATATCTGCTAGCCGAACTCAACATCTGGCGCAATTTCTCTTTCTTCATCTCGACCTCA GACCTTGCTTGTGCCCTGTCAGCTTCCATCGCGGCCCTTTCTTCCTCTCTCCTGTGCCGCTCCT CAGCTTGTCTTTTCCTTTCAGCTTCTTCTGCAGCAAGCCTCTCGAGTTCCTTTCGCTTTTCTTC AACCAAGAAGTCCTCAAATGAGTGTTCATCTATGTCACTTTCTATTTCCAGGAAAAAATCGTTG TGATTGTTATTTTCATAGACAGTGTCACCGTTAAAGAATACAAAGTCTAGTCTGTATGCCTGCT TGGGAATGTAGAGCTTGCAGCACCACCAATCCCCTCTTAATTCGCTTCTATGCATTGTTTCAGT GAAACGGTTCCATCTCCAACCATTGAATGCTCCTTTTACAAAAACGTCGGACTCACTAGCTAAG GCCGACATGCTGCGGTTTAAGTAAAGATCAATCATCGAATCAGCCTTCACTACTTCAGGGAAAA CAAAACAGTTGTTCCCAGTCGAATAATTCTCATCAGCAAGCTCTTGAAGCCTCCTCAGTAGCAC TTCTGGATCATCTTCAGATACCGGAAGCTCTTCATCTGCGTCTGTACTTATCCCGACATCATCT TCTAACGAGACAGCTTGCCCTTCCTCATTCTCGCTGCTTGCCTTTCCTGCTGCTGATTCAGTAA AATCCTTATGACCCACAACGGCCTCAGCAAATAGCCTGCCTTTTGTTGGTGCATCAACAATTGA ACTGCCATGTTCCTCAGAACCAGTTATTGGTTCGTGCTGGCCGTGAAAACCGCCAACTGATTCG TTTTGTCCAGCAACACTTGCAAGTGACGAAGGTTCAGGTTTGGAACTTACTAGAGCACTTATTT TACCACGGTACTCATCAAGTTGCCGGTCGATTGAGTCATCATCCATGGACGCGGAAGGCAACGC TGAAGATTGATTTTGGTCAGCCTCTTCTTCGGTACCAGCTCCGTCCCTTTCTGCGCCACTTAAA ATGTCTCCTGTCATGTAAACCTGAGACGATTCTTCAGCAGTACTTGCCTGCTCTGCTGCCTCGC CATAGAGTGACCCATTGGCTCTGCTGAAATCACCTTCATTGTTCCTGCTCTGTTCTATCTTCTT CGTACTGGATTCAGCAGTAGGTCTCGAAGCATACCCTCCAGAGGCAACGCCCTTGCTCTTAGAA GTCGATGCCCTCCTCGGATTCCTCTTGGGATAATCTGAGTAACGCAATGTCAGGAAGAAAGAAA AAACAAGAAACATGAGCTAAGCAGTAGGAGCAGTGAGATTGCTGTAACCAGAATCATTCCTCAA ACCTGAACTTGATACCATGCATCGAACGAGCCCGCCTCTCGTAAATCTGCTGCACCTTACGACA G

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.073251305

Conservation Information
Conserved circRNAs	NA
PMCS	0.073251305

			
						 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
						Lu et al., 2015

circRNA

Detail information of Zm00001d026337_circ_g.1

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