Plant Circular RNA Database

Detail information of Zm00001d019561_circ_g.1

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d019561_circ_g.1
					

						ID in PlantcircBase
						zma_circ_002487
					

						Alias
						circ1167
					

						Organism
						
							Zea mays						
					

						Position
						
							chr7: 42680733-42683006  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							e-circRNA							
									
								

					

						Identification method
						CIRI
					

						Parent gene
						
							Zm00001d019561						
					

						Parent gene annotation
						
							SUPPRESSOR OF ABI3-5
							
					

						Parent gene strand
						-
					

						Alternative splicing
						
							Zm00001d019561_circ_g.2 						
					

						Support reads
						3
					

						Tissues
						seedling leaves
					

						Exon boundary  
						
							No-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-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
						Zm00001d019561_T042:6
Zm00001d019561_T024:6
Zm00001d019561_T022:6
Zm00001d019561_T037:6
Zm00001d019561_T084:6
Zm00001d019561_T063:6
Zm00001d019561_T064:6
Zm00001d019561_T077:6
Zm00001d019561_T031:6
Zm00001d019561_T026:6
Zm00001d019561_T014:6
Zm00001d019561_T007:6
Zm00001d019561_T005:6
Zm00001d019561_T070:6
Zm00001d019561_T049:6
Zm00001d019561_T018:6
Zm00001d019561_T023:6
Zm00001d019561_T035:6
Zm00001d019561_T045:6
Zm00001d019561_T039:6
Zm00001d019561_T065:6
Zm00001d019561_T027:6
Zm00001d019561_T044:6
Zm00001d019561_T058:6
Zm00001d019561_T032:6
Zm00001d019561_T012:6
Zm00001d019561_T047:6
Zm00001d019561_T002:6
Zm00001d019561_T050:6
Zm00001d019561_T036:6
Zm00001d019561_T052:6
Zm00001d019561_T004:6
Zm00001d019561_T015:6
Zm00001d019561_T048:6
Zm00001d019561_T073:6
Zm00001d019561_T086:6
Zm00001d019561_T034:6
Zm00001d019561_T071:6
Zm00001d019561_T056:6
Zm00001d019561_T060:6
Zm00001d019561_T068:6
Zm00001d019561_T046:6
Zm00001d019561_T054:6
Zm00001d019561_T010:6
Zm00001d019561_T020:6
Zm00001d019561_T038:6
Zm00001d019561_T009:6
Zm00001d019561_T066:6
Zm00001d019561_T067:6
Zm00001d019561_T059:6
Zm00001d019561_T040:6

					

			
		

General Information
CircRNA Name	Zm00001d019561_circ_g.1
ID in PlantcircBase	zma_circ_002487
Alias	circ1167
Organism	Zea mays
Position	chr7: 42680733-42683006 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	CIRI
Parent gene	Zm00001d019561
Parent gene annotation	SUPPRESSOR OF ABI3-5
Parent gene strand	-
Alternative splicing	Zm00001d019561_circ_g.2
Support reads	3
Tissues	seedling leaves
Exon boundary	No-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-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	Zm00001d019561_T042:6 Zm00001d019561_T024:6 Zm00001d019561_T022:6 Zm00001d019561_T037:6 Zm00001d019561_T084:6 Zm00001d019561_T063:6 Zm00001d019561_T064:6 Zm00001d019561_T077:6 Zm00001d019561_T031:6 Zm00001d019561_T026:6 Zm00001d019561_T014:6 Zm00001d019561_T007:6 Zm00001d019561_T005:6 Zm00001d019561_T070:6 Zm00001d019561_T049:6 Zm00001d019561_T018:6 Zm00001d019561_T023:6 Zm00001d019561_T035:6 Zm00001d019561_T045:6 Zm00001d019561_T039:6 Zm00001d019561_T065:6 Zm00001d019561_T027:6 Zm00001d019561_T044:6 Zm00001d019561_T058:6 Zm00001d019561_T032:6 Zm00001d019561_T012:6 Zm00001d019561_T047:6 Zm00001d019561_T002:6 Zm00001d019561_T050:6 Zm00001d019561_T036:6 Zm00001d019561_T052:6 Zm00001d019561_T004:6 Zm00001d019561_T015:6 Zm00001d019561_T048:6 Zm00001d019561_T073:6 Zm00001d019561_T086:6 Zm00001d019561_T034:6 Zm00001d019561_T071:6 Zm00001d019561_T056:6 Zm00001d019561_T060:6 Zm00001d019561_T068:6 Zm00001d019561_T046:6 Zm00001d019561_T054:6 Zm00001d019561_T010:6 Zm00001d019561_T020:6 Zm00001d019561_T038:6 Zm00001d019561_T009:6 Zm00001d019561_T066:6 Zm00001d019561_T067:6 Zm00001d019561_T059:6 Zm00001d019561_T040:6

			
						 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  
						
							AAGCACAAAACTTGCCTAGTTCAGATCCCCTTCTCCCAAAGTGTGAAGCGGAACCTGTCGCATC
AGCTGGAAGAGCATCCTCAGTACGAGGTTCATTGCActtgaatccaatccaacagtatcagtgc
catgagatgatccatacagatttcgtctttctgcagctcgatccctgtactgggattgtcccgg
tgcctcag

									
								

					

						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
						
							CTTGAATCCAATCCAACAGTATCAGTGCCATGAGATGATCCATACAGATTTCGTCTTTCTGCAG
CTCGATCCCTGTACTGGGATTGTCCCGGTGCCTCAGAAAACCGACGTTTACCACTCCCAGAAAC
TCCCGATGGAGTATTAGAGACTAAGGCAGACACATCAGTTTTGAAGGGTGCAGGAGTTATAAGT
GCCTCAGAACTTGTCATTAACCCACTTGCTCTTGTGGTTATAGTGGTGCGGGAATCAGTGCTAC
CAGCATCAGATAATGCGTGAAACGTAGTATCTGACTTGATCACTCCTCTAGCAGAACCTCTTAT
GACACCCATAACTGTAGTCCCTAAGCTGTTACTGACAGGTCTAGGCTTTACAACAGAATCCAAT
GTTTGAGTCGATGTCATTCCTTGGCCAAGAGAATTGCCCATAGCATTTTCAAGGTCAGAATTTG
GCTTGCTTTTCAAAGAGAATCCAGTTCCACTACGTGAATGACTAAATTTATCATCAGAATTTGC
TGGTTCTTTGTCATCAAGGACAATTCGTGCGGCCTGCCCTTCTTGATTCCTTTGCTTCCACATA
GCTAGGACATTGCTCATCTTCTTATTAGCTATGAGACTATTTTTTGAGGCCAATTTAATCTCTT
TTGCCTTCTCCTTTTCTCTCTTTTCTGCAGCCAGTGCAGCATTTGCAGCAGCTTGAACAGCGTC
AGGAAGTGAAGTTTTCTCACTTTGTTTAATTGTGGCAGCAGGCGCAGAGATCACAACCTTTTTG
CCACTATTACTATCTGAGGTTTTCGTGTTTTCGCTGGCCGCCTCCCCGGCTGCCTTAGTGTTGC
TCTGGTCATTACAAGGGACATATTGTTGAGTCTGTTGATCATATGAATACCAAACTCCAGAGTT
GCTGTCATAGTAAAGGCCTGCAACAAACAAGAATACAAGATTACATATTAAAATTTAAAACATA
AATGAAAAATGATCCGTAACCATAACGTTACCAGCAAAATTGGTCATGGTGTTAAGTTTAAACA
AAATATTGATGCAGTAGACTCAAAGGCTTACCAGTAGTTCCATCATAATAGAATCCAGATGCAG
AATCATAGTAGTAACCAGATTTTTCATCCCAAACAAATCCCGACTGTGCTGTGCTGCCATCTTT
TTGAGATTCAGAGTTGTTGTTCTGTTTGTCATCAGGATTGTACTCTTTTGGAGCCCAACCTATG
GCATCATACTGGTCCAACAGGCAAAGGCATTAAACAAATGAGCAACATGTCTACAACCTGCCTA
AAGTATGTGCTAAGTTAACATGAGAATGTGATGAAGGTCAGCCCCCTGTCCTTTTTCATTCTGC
TTATTTGACACCTTAGCATTTTTTAAATGTGGTTCTGGTTTTTTTAGTACTTTCCATTAGTAAC
TAATGACTATTAAGAGCTTGTAGAAACAAATCTAGTTATAATTTTCATATGCCCAATCTCCAAG
CTTTCAGAATCGTCATGTCTCAAATTTGACATCACAGCTTGTAAAGAACCAAATACTGTGAGAA
ATGACAAAGGAAGTAATATGTAATGGATATCTTATATAAATAGAAATGGTAAATGCATAATCTT
ACAGTGTCAAGAGCTATAACAAACCTGCTGAGCAAATGATGCAGCCTCAATGGCAGCTGCAGCA
AGGCTGTTTGACTGAGAACCCCCTGATGCAGGTCCATGTGTACTTTTAGCATATGCTACACGCA
AAACCTGACCGTTTTTCTCAAGTGTAATCCCGTTTGTAGCTTCCAGAGCTTTCGTAGCATCTTC
CACCTGTCACGACAAAATGTGGAAATTGTCAGGAACTACATACATCAAGAAAAAATCAACTCAA
TCCACCAGACAACACTACTTACCGAATGGAAATGAACGAAGGCAAAACCTCTAGACACATGAGT
AAACTTATCCCGAACAAGGCGGATGTCCTGGTGAGAAATAACATGTAACGTGTCCAGAAAAATA
AAATAAACCTCAAGCAATTAGTTTATTGCCCACCTTTATTGGTGCGTGCTTAGCAAATTCGTAC
CGAAGCATTTCCTCATCAGCATTTTCATCCAAGCCACGAACAACTAAAACATGAGTTGGACCTG
CAAATGACCACAACTAAATAAGGCAGCACAATATATCACATGATTCCAGAATGAAACTATGGAA
GCACAAAACTTGCCTAGTTCAGATCCCCTTCTCCCAAAGTGTGAAGCGGAACCTGTCGCATCAG
CTGGAAGAGCATCCTCAGTACGAGGTTCATTGCA
						
					

			
		

Sequences
Splice junction sequence	AAGCACAAAACTTGCCTAGTTCAGATCCCCTTCTCCCAAAGTGTGAAGCGGAACCTGTCGCATC AGCTGGAAGAGCATCCTCAGTACGAGGTTCATTGCActtgaatccaatccaacagtatcagtgc catgagatgatccatacagatttcgtctttctgcagctcgatccctgtactgggattgtcccgg tgcctcag
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	CTTGAATCCAATCCAACAGTATCAGTGCCATGAGATGATCCATACAGATTTCGTCTTTCTGCAG CTCGATCCCTGTACTGGGATTGTCCCGGTGCCTCAGAAAACCGACGTTTACCACTCCCAGAAAC TCCCGATGGAGTATTAGAGACTAAGGCAGACACATCAGTTTTGAAGGGTGCAGGAGTTATAAGT GCCTCAGAACTTGTCATTAACCCACTTGCTCTTGTGGTTATAGTGGTGCGGGAATCAGTGCTAC CAGCATCAGATAATGCGTGAAACGTAGTATCTGACTTGATCACTCCTCTAGCAGAACCTCTTAT GACACCCATAACTGTAGTCCCTAAGCTGTTACTGACAGGTCTAGGCTTTACAACAGAATCCAAT GTTTGAGTCGATGTCATTCCTTGGCCAAGAGAATTGCCCATAGCATTTTCAAGGTCAGAATTTG GCTTGCTTTTCAAAGAGAATCCAGTTCCACTACGTGAATGACTAAATTTATCATCAGAATTTGC TGGTTCTTTGTCATCAAGGACAATTCGTGCGGCCTGCCCTTCTTGATTCCTTTGCTTCCACATA GCTAGGACATTGCTCATCTTCTTATTAGCTATGAGACTATTTTTTGAGGCCAATTTAATCTCTT TTGCCTTCTCCTTTTCTCTCTTTTCTGCAGCCAGTGCAGCATTTGCAGCAGCTTGAACAGCGTC AGGAAGTGAAGTTTTCTCACTTTGTTTAATTGTGGCAGCAGGCGCAGAGATCACAACCTTTTTG CCACTATTACTATCTGAGGTTTTCGTGTTTTCGCTGGCCGCCTCCCCGGCTGCCTTAGTGTTGC TCTGGTCATTACAAGGGACATATTGTTGAGTCTGTTGATCATATGAATACCAAACTCCAGAGTT GCTGTCATAGTAAAGGCCTGCAACAAACAAGAATACAAGATTACATATTAAAATTTAAAACATA AATGAAAAATGATCCGTAACCATAACGTTACCAGCAAAATTGGTCATGGTGTTAAGTTTAAACA AAATATTGATGCAGTAGACTCAAAGGCTTACCAGTAGTTCCATCATAATAGAATCCAGATGCAG AATCATAGTAGTAACCAGATTTTTCATCCCAAACAAATCCCGACTGTGCTGTGCTGCCATCTTT TTGAGATTCAGAGTTGTTGTTCTGTTTGTCATCAGGATTGTACTCTTTTGGAGCCCAACCTATG GCATCATACTGGTCCAACAGGCAAAGGCATTAAACAAATGAGCAACATGTCTACAACCTGCCTA AAGTATGTGCTAAGTTAACATGAGAATGTGATGAAGGTCAGCCCCCTGTCCTTTTTCATTCTGC TTATTTGACACCTTAGCATTTTTTAAATGTGGTTCTGGTTTTTTTAGTACTTTCCATTAGTAAC TAATGACTATTAAGAGCTTGTAGAAACAAATCTAGTTATAATTTTCATATGCCCAATCTCCAAG CTTTCAGAATCGTCATGTCTCAAATTTGACATCACAGCTTGTAAAGAACCAAATACTGTGAGAA ATGACAAAGGAAGTAATATGTAATGGATATCTTATATAAATAGAAATGGTAAATGCATAATCTT ACAGTGTCAAGAGCTATAACAAACCTGCTGAGCAAATGATGCAGCCTCAATGGCAGCTGCAGCA AGGCTGTTTGACTGAGAACCCCCTGATGCAGGTCCATGTGTACTTTTAGCATATGCTACACGCA AAACCTGACCGTTTTTCTCAAGTGTAATCCCGTTTGTAGCTTCCAGAGCTTTCGTAGCATCTTC CACCTGTCACGACAAAATGTGGAAATTGTCAGGAACTACATACATCAAGAAAAAATCAACTCAA TCCACCAGACAACACTACTTACCGAATGGAAATGAACGAAGGCAAAACCTCTAGACACATGAGT AAACTTATCCCGAACAAGGCGGATGTCCTGGTGAGAAATAACATGTAACGTGTCCAGAAAAATA AAATAAACCTCAAGCAATTAGTTTATTGCCCACCTTTATTGGTGCGTGCTTAGCAAATTCGTAC CGAAGCATTTCCTCATCAGCATTTTCATCCAAGCCACGAACAACTAAAACATGAGTTGGACCTG CAAATGACCACAACTAAATAAGGCAGCACAATATATCACATGATTCCAGAATGAAACTATGGAA GCACAAAACTTGCCTAGTTCAGATCCCCTTCTCCCAAAGTGTGAAGCGGAACCTGTCGCATCAG CTGGAAGAGCATCCTCAGTACGAGGTTCATTGCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.120123388

Conservation Information
Conserved circRNAs	NA
PMCS	0.120123388

			
						 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
						Chen et al., 2017b

circRNA

Detail information of Zm00001d019561_circ_g.1

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