Plant Circular RNA Database

Detail information of Zm00001d019108_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d019108_circ_g.2
					

						ID in PlantcircBase
						zma_circ_002464
					

						Alias
						circ1559
					

						Organism
						
							Zea mays						
					

						Position
						
							chr7: 17233638-17234502  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRCexplor2
					

						Parent gene
						
							Zm00001d019108						
					

						Parent gene annotation
						
							 Ribosomal protein S1-like1
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							NA						
					

						Support reads
						2
					

						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  
						
							GT-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
						Zm00001d019108_T004:4
Zm00001d019108_T022:4
Zm00001d019108_T040:4
Zm00001d019108_T021:4
Zm00001d019108_T034:4
Zm00001d019108_T083:4
Zm00001d019108_T080:4
Zm00001d019108_T095:4
Zm00001d019108_T002:4
Zm00001d019108_T073:4
Zm00001d019108_T024:4
Zm00001d019108_T012:4
Zm00001d019108_T031:4
Zm00001d019108_T010:4
Zm00001d019108_T007:4
Zm00001d019108_T015:5
Zm00001d019108_T053:4
Zm00001d019108_T047:4
Zm00001d019108_T029:3
Zm00001d019108_T041:4
Zm00001d019108_T036:4
Zm00001d019108_T085:4
Zm00001d019108_T027:4
Zm00001d019108_T064:4
Zm00001d019108_T003:4
Zm00001d019108_T087:4
Zm00001d019108_T089:4
Zm00001d019108_T019:4
Zm00001d019108_T025:4
Zm00001d019108_T096:4
Zm00001d019108_T038:3
Zm00001d019108_T032:4
Zm00001d019108_T005:3
Zm00001d019108_T008:4
Zm00001d019108_T026:4
Zm00001d019108_T023:4
Zm00001d019108_T013:4
Zm00001d019108_T076:4
Zm00001d019108_T035:4
Zm00001d019108_T016:4
Zm00001d019108_T014:4
Zm00001d019108_T061:4
Zm00001d019108_T020:4
Zm00001d019108_T011:4
Zm00001d019108_T006:4
Zm00001d019108_T097:4
Zm00001d019108_T084:4
Zm00001d019108_T018:4
Zm00001d019108_T028:4
Zm00001d019108_T030:4
Zm00001d019108_T001:4
Zm00001d019108_T086:5
Zm00001d019108_T009:1
Zm00001d019108_T017:4
Zm00001d019108_T079:4
Zm00001d019108_T092:4
Zm00001d019108_T039:4
Zm00001d019108_T033:4
Zm00001d019108_T059:4
Zm00001d019108_T051:4
Zm00001d019108_T042:4
Zm00001d019108_T037:3

					

			
		

General Information
CircRNA Name	Zm00001d019108_circ_g.2
ID in PlantcircBase	zma_circ_002464
Alias	circ1559
Organism	Zea mays
Position	chr7: 17233638-17234502 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d019108
Parent gene annotation	Ribosomal protein S1-like1
Parent gene strand	+
Alternative splicing	NA
Support reads	2
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	GT-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	Zm00001d019108_T004:4 Zm00001d019108_T022:4 Zm00001d019108_T040:4 Zm00001d019108_T021:4 Zm00001d019108_T034:4 Zm00001d019108_T083:4 Zm00001d019108_T080:4 Zm00001d019108_T095:4 Zm00001d019108_T002:4 Zm00001d019108_T073:4 Zm00001d019108_T024:4 Zm00001d019108_T012:4 Zm00001d019108_T031:4 Zm00001d019108_T010:4 Zm00001d019108_T007:4 Zm00001d019108_T015:5 Zm00001d019108_T053:4 Zm00001d019108_T047:4 Zm00001d019108_T029:3 Zm00001d019108_T041:4 Zm00001d019108_T036:4 Zm00001d019108_T085:4 Zm00001d019108_T027:4 Zm00001d019108_T064:4 Zm00001d019108_T003:4 Zm00001d019108_T087:4 Zm00001d019108_T089:4 Zm00001d019108_T019:4 Zm00001d019108_T025:4 Zm00001d019108_T096:4 Zm00001d019108_T038:3 Zm00001d019108_T032:4 Zm00001d019108_T005:3 Zm00001d019108_T008:4 Zm00001d019108_T026:4 Zm00001d019108_T023:4 Zm00001d019108_T013:4 Zm00001d019108_T076:4 Zm00001d019108_T035:4 Zm00001d019108_T016:4 Zm00001d019108_T014:4 Zm00001d019108_T061:4 Zm00001d019108_T020:4 Zm00001d019108_T011:4 Zm00001d019108_T006:4 Zm00001d019108_T097:4 Zm00001d019108_T084:4 Zm00001d019108_T018:4 Zm00001d019108_T028:4 Zm00001d019108_T030:4 Zm00001d019108_T001:4 Zm00001d019108_T086:5 Zm00001d019108_T009:1 Zm00001d019108_T017:4 Zm00001d019108_T079:4 Zm00001d019108_T092:4 Zm00001d019108_T039:4 Zm00001d019108_T033:4 Zm00001d019108_T059:4 Zm00001d019108_T051:4 Zm00001d019108_T042:4 Zm00001d019108_T037:3

			
						 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  
						
							TTGACCTTTGGTGTAGGAAATCCGCCTTGGTGACGTAGAAGTTATACGGGCATTGTTTGAGAGG
GTGACTTGTCTGACCCTACCTCCAAAAAAGATGCAGgggctttaaaaacaataatccccagaga
agaagaagagaaactaaatgtttgggtagcatatttcaatctggaaaatgaatacggtagtcca
agggaggt

						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
						
							GGGCTTTAAAAACAATAATCCCCAGAGAAGAAGAAGAGAAACTAAATGTTTGGGTAGCATATTT
CAATCTGGAAAATGAATACGGTAGTCCAAGGGAGGTAAGGTTGAATAATGTTGTATTTTGGGTT
GCTGTGCTGTACTTGGATATACTGAGACACTTGGTTGTGTACACTACAGGATGCTGTGAAAAAG
GTATTCCAAAGAGCCTTGCAATATTGTGATCCCAAAAAGCTGCACTTGGCTCTTCTTGCGATGT
ACGAGAGGACCGAACAGTATGAGCTTGCAGATGAACTTCTAGACAGAATGACCAAAAGGTTCAA
AACTTCCTGCAAGGTTAGTTTATAATTTTTTTCGAGTTGAATCCATAAGGTTATGCCACGTTCA
GTTTGTCCTATTTGTATCTGCAGATCCTATTTGTGACTTATATAATATAACTGCAGATATGGTT
ATGCCGCATTCAGTTTGCTCTCAAGCAAGGCAAGGATGTTGAGTACATCAAAGCCATTGTAAAC
CGTGCACTTCTAAGTTTGCCACACAGAAAGCGCATAAAATTCCTCTCACAAACTGCTATTCTAG
AATTCAAATGTGGGGTGCCTGAAGAAGGAAGATCCAGATTTGAACTAATATTGCGGGAGTACCC
AAAAAGAACAGACCTTTGGAGTGTTTATCTAGACCAAGTAAGGAGCATTAAGTTCATCATATGT
AAAATGGAATCAGTACTTTTTATGCTTTAAAATCATGCAAGTTTGTTGACATACATATACATTG
ACCTTTGGTGTAGGAAATCCGCCTTGGTGACGTAGAAGTTATACGGGCATTGTTTGAGAGGGTG
ACTTGTCTGACCCTACCTCCAAAAAAGATGCAG

Sequences
Splice junction sequence	TTGACCTTTGGTGTAGGAAATCCGCCTTGGTGACGTAGAAGTTATACGGGCATTGTTTGAGAGG GTGACTTGTCTGACCCTACCTCCAAAAAAGATGCAGgggctttaaaaacaataatccccagaga agaagaagagaaactaaatgtttgggtagcatatttcaatctggaaaatgaatacggtagtcca agggaggt
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	GGGCTTTAAAAACAATAATCCCCAGAGAAGAAGAAGAGAAACTAAATGTTTGGGTAGCATATTT CAATCTGGAAAATGAATACGGTAGTCCAAGGGAGGTAAGGTTGAATAATGTTGTATTTTGGGTT GCTGTGCTGTACTTGGATATACTGAGACACTTGGTTGTGTACACTACAGGATGCTGTGAAAAAG GTATTCCAAAGAGCCTTGCAATATTGTGATCCCAAAAAGCTGCACTTGGCTCTTCTTGCGATGT ACGAGAGGACCGAACAGTATGAGCTTGCAGATGAACTTCTAGACAGAATGACCAAAAGGTTCAA AACTTCCTGCAAGGTTAGTTTATAATTTTTTTCGAGTTGAATCCATAAGGTTATGCCACGTTCA GTTTGTCCTATTTGTATCTGCAGATCCTATTTGTGACTTATATAATATAACTGCAGATATGGTT ATGCCGCATTCAGTTTGCTCTCAAGCAAGGCAAGGATGTTGAGTACATCAAAGCCATTGTAAAC CGTGCACTTCTAAGTTTGCCACACAGAAAGCGCATAAAATTCCTCTCACAAACTGCTATTCTAG AATTCAAATGTGGGGTGCCTGAAGAAGGAAGATCCAGATTTGAACTAATATTGCGGGAGTACCC AAAAAGAACAGACCTTTGGAGTGTTTATCTAGACCAAGTAAGGAGCATTAAGTTCATCATATGT AAAATGGAATCAGTACTTTTTATGCTTTAAAATCATGCAAGTTTGTTGACATACATATACATTG ACCTTTGGTGTAGGAAATCCGCCTTGGTGACGTAGAAGTTATACGGGCATTGTTTGAGAGGGTG ACTTGTCTGACCCTACCTCCAAAAAAGATGCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.194128767

Conservation Information
Conserved circRNAs	NA
PMCS	0.194128767

			
						 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 Zm00001d019108_circ_g.2

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