Plant Circular RNA Database

Detail information of Zm00001d041889_circ_g.17

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d041889_circ_g.17
					

						ID in PlantcircBase
						zma_circ_004233
					

						Alias
						Rctrl_test_circ_001198
					

						Organism
						
							Zea mays						
					

						Position
						
							chr3: 142438881-142439448  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							ui-circRNA							
									
								

					

						Identification method
						find_circ
					

						Parent gene
						
							Zm00001d041889						
					

						Parent gene annotation
						
							protein_coding
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d041889_circ_g.1 Zm00001d041889_circ_g.2 Zm00001d041889_circ_g.3 Zm00001d041889_circ_g.4 Zm00001d041889_circ_g.5 Zm00001d041889_circ_g.6 Zm00001d041889_circ_g.7 Zm00001d041889_circ_g.8 Zm00001d041889_circ_g.9 Zm00001d041889_circ_g.10 Zm00001d041889_circ_g.11 Zm00001d041889_circ_g.12 Zm00001d041889_circ_g.13 Zm00001d041889_circ_g.14 Zm00001d041889_circ_g.15 Zm00001d041889_circ_g.16 Zm00001d041889_circ_g.18 Zm00001d041889_circ_g.19 						
					

						Support reads
						NA
					

						Tissues
						root
					

						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-CA							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
						Zm00001d041889_T129:2
Zm00001d041889_T051:2
Zm00001d041889_T106:2
Zm00001d041889_T059:2
Zm00001d041889_T087:2
Zm00001d041889_T042:2
Zm00001d041889_T070:2
Zm00001d041889_T148:1
Zm00001d041889_T114:2
Zm00001d041889_T079:2
Zm00001d041889_T035:2
Zm00001d041889_T033:2
Zm00001d041889_T092:2
Zm00001d041889_T135:2
Zm00001d041889_T139:2
Zm00001d041889_T138:2
Zm00001d041889_T103:2
Zm00001d041889_T027:2
Zm00001d041889_T147:2
Zm00001d041889_T081:2
Zm00001d041889_T036:2
Zm00001d041889_T007:2
Zm00001d041889_T041:2
Zm00001d041889_T115:2
Zm00001d041889_T062:2
Zm00001d041889_T140:2
Zm00001d041889_T094:2
Zm00001d041889_T005:2
Zm00001d041889_T010:2
Zm00001d041889_T075:2
Zm00001d041889_T083:2
Zm00001d041889_T061:2
Zm00001d041889_T002:2
Zm00001d041889_T025:2
Zm00001d041889_T001:2
Zm00001d041889_T113:2
Zm00001d041889_T014:2
Zm00001d041889_T150:1
Zm00001d041889_T097:2
Zm00001d041889_T090:2
Zm00001d041889_T034:2
Zm00001d041889_T031:2
Zm00001d041889_T132:2
Zm00001d041889_T141:2
Zm00001d041889_T065:2
Zm00001d041889_T089:2
Zm00001d041889_T022:2
Zm00001d041889_T016:2
Zm00001d041889_T018:2
Zm00001d041889_T144:2
Zm00001d041889_T107:2
Zm00001d041889_T116:2
Zm00001d041889_T039:2
Zm00001d041889_T012:2
Zm00001d041889_T108:2
Zm00001d041889_T003:2
Zm00001d041889_T068:2
Zm00001d041889_T143:2
Zm00001d041889_T082:2
Zm00001d041889_T054:2
Zm00001d041889_T077:2
Zm00001d041889_T146:2
Zm00001d041889_T045:2
Zm00001d041889_T085:2
Zm00001d041889_T086:2
Zm00001d041889_T047:2
Zm00001d041889_T096:2
Zm00001d041889_T029:2
Zm00001d041889_T145:2
Zm00001d041889_T073:1
Zm00001d041889_T149:1
Zm00001d041889_T066:2
Zm00001d041889_T134:2
Zm00001d041889_T131:2
Zm00001d041889_T049:2
Zm00001d041889_T136:2
Zm00001d041889_T019:2
Zm00001d041889_T102:2
Zm00001d041889_T117:2
Zm00001d041889_T057:2
Zm00001d041889_T101:2
Zm00001d041889_T048:2
Zm00001d041889_T021:2
Zm00001d041889_T064:2
Zm00001d041889_T142:2
Zm00001d041889_T137:2
Zm00001d041889_T099:2

					

			
		

General Information
CircRNA Name	Zm00001d041889_circ_g.17
ID in PlantcircBase	zma_circ_004233
Alias	Rctrl_test_circ_001198
Organism	Zea mays
Position	chr3: 142438881-142439448 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	find_circ
Parent gene	Zm00001d041889
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d041889_circ_g.1 Zm00001d041889_circ_g.2 Zm00001d041889_circ_g.3 Zm00001d041889_circ_g.4 Zm00001d041889_circ_g.5 Zm00001d041889_circ_g.6 Zm00001d041889_circ_g.7 Zm00001d041889_circ_g.8 Zm00001d041889_circ_g.9 Zm00001d041889_circ_g.10 Zm00001d041889_circ_g.11 Zm00001d041889_circ_g.12 Zm00001d041889_circ_g.13 Zm00001d041889_circ_g.14 Zm00001d041889_circ_g.15 Zm00001d041889_circ_g.16 Zm00001d041889_circ_g.18 Zm00001d041889_circ_g.19
Support reads	NA
Tissues	root
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-CA 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	Zm00001d041889_T129:2 Zm00001d041889_T051:2 Zm00001d041889_T106:2 Zm00001d041889_T059:2 Zm00001d041889_T087:2 Zm00001d041889_T042:2 Zm00001d041889_T070:2 Zm00001d041889_T148:1 Zm00001d041889_T114:2 Zm00001d041889_T079:2 Zm00001d041889_T035:2 Zm00001d041889_T033:2 Zm00001d041889_T092:2 Zm00001d041889_T135:2 Zm00001d041889_T139:2 Zm00001d041889_T138:2 Zm00001d041889_T103:2 Zm00001d041889_T027:2 Zm00001d041889_T147:2 Zm00001d041889_T081:2 Zm00001d041889_T036:2 Zm00001d041889_T007:2 Zm00001d041889_T041:2 Zm00001d041889_T115:2 Zm00001d041889_T062:2 Zm00001d041889_T140:2 Zm00001d041889_T094:2 Zm00001d041889_T005:2 Zm00001d041889_T010:2 Zm00001d041889_T075:2 Zm00001d041889_T083:2 Zm00001d041889_T061:2 Zm00001d041889_T002:2 Zm00001d041889_T025:2 Zm00001d041889_T001:2 Zm00001d041889_T113:2 Zm00001d041889_T014:2 Zm00001d041889_T150:1 Zm00001d041889_T097:2 Zm00001d041889_T090:2 Zm00001d041889_T034:2 Zm00001d041889_T031:2 Zm00001d041889_T132:2 Zm00001d041889_T141:2 Zm00001d041889_T065:2 Zm00001d041889_T089:2 Zm00001d041889_T022:2 Zm00001d041889_T016:2 Zm00001d041889_T018:2 Zm00001d041889_T144:2 Zm00001d041889_T107:2 Zm00001d041889_T116:2 Zm00001d041889_T039:2 Zm00001d041889_T012:2 Zm00001d041889_T108:2 Zm00001d041889_T003:2 Zm00001d041889_T068:2 Zm00001d041889_T143:2 Zm00001d041889_T082:2 Zm00001d041889_T054:2 Zm00001d041889_T077:2 Zm00001d041889_T146:2 Zm00001d041889_T045:2 Zm00001d041889_T085:2 Zm00001d041889_T086:2 Zm00001d041889_T047:2 Zm00001d041889_T096:2 Zm00001d041889_T029:2 Zm00001d041889_T145:2 Zm00001d041889_T073:1 Zm00001d041889_T149:1 Zm00001d041889_T066:2 Zm00001d041889_T134:2 Zm00001d041889_T131:2 Zm00001d041889_T049:2 Zm00001d041889_T136:2 Zm00001d041889_T019:2 Zm00001d041889_T102:2 Zm00001d041889_T117:2 Zm00001d041889_T057:2 Zm00001d041889_T101:2 Zm00001d041889_T048:2 Zm00001d041889_T021:2 Zm00001d041889_T064:2 Zm00001d041889_T142:2 Zm00001d041889_T137:2 Zm00001d041889_T099:2

			
						 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  
						
							GAGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGC
ATGATAATGACAGAATAGCTGAAGAGACTGATAAAGgaccatgaagagcaaagcaatgtgttcg
gagaacggagagttagcttggaagcaaatgccaacgagcctgaggaaaagaacctagctaacgt
catatcaa

						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
						
							GACCATGAAGAGCAAAGCAATGTGTTCGGAGAACGGAGAGTTAGCTTGGAAGCAAATGCCAACG
AGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGCA
TGATAATGACAGAATAGCTGAAGAGACTGATAAAGGTACAACCGAATTAATCCTGCCCAGACTG
ACCTAGAAATTAAGTTAAACGATGAACTTGCTGATCCGGGTATGGACTGTGTTTAATTTACCAA
TTTTAAACATACTGAGTTCTAAGTCAAATTGTTGGCTACGTGTAATTCTAATCATTAGCTTTGT
CCATTATTGTCATGTTATATACTGAAAGGAAGACTTTGTCGTTCCAAAATCACCAAATGGTTTA
TCAATTAGTTTCACTGTTGCAGACCATGAAGAGCAAAGCAATGTGTCCGGAGAACGGAGAGTTA
GCTTGGAAGCAAATGCCAACGAGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCT
CCACACCAAAACTCTGCAGCATGATAATGACAGAATAGCTGAAGAGACTGATAAAG

Sequences
Splice junction sequence	GAGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGC ATGATAATGACAGAATAGCTGAAGAGACTGATAAAGgaccatgaagagcaaagcaatgtgttcg gagaacggagagttagcttggaagcaaatgccaacgagcctgaggaaaagaacctagctaacgt catatcaa
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	GACCATGAAGAGCAAAGCAATGTGTTCGGAGAACGGAGAGTTAGCTTGGAAGCAAATGCCAACG AGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCTCCACACCAAAACTCTGCAGCA TGATAATGACAGAATAGCTGAAGAGACTGATAAAGGTACAACCGAATTAATCCTGCCCAGACTG ACCTAGAAATTAAGTTAAACGATGAACTTGCTGATCCGGGTATGGACTGTGTTTAATTTACCAA TTTTAAACATACTGAGTTCTAAGTCAAATTGTTGGCTACGTGTAATTCTAATCATTAGCTTTGT CCATTATTGTCATGTTATATACTGAAAGGAAGACTTTGTCGTTCCAAAATCACCAAATGGTTTA TCAATTAGTTTCACTGTTGCAGACCATGAAGAGCAAAGCAATGTGTCCGGAGAACGGAGAGTTA GCTTGGAAGCAAATGCCAACGAGCCTGAGGAAAAGAACCTAGCTAACGTCATATCAACTGATCT CCACACCAAAACTCTGCAGCATGATAATGACAGAATAGCTGAAGAGACTGATAAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.210895557

Conservation Information
Conserved circRNAs	NA
PMCS	0.210895557

			
						 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
						Tang et al., 2018

circRNA

Detail information of Zm00001d041889_circ_g.17

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