Plant Circular RNA Database

Detail information of Zm00001d002089_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d002089_circ_g.2
					
						ID in PlantcircBase
						zma_circ_007029
					
						Alias
						Zm02circ00005, ZmciR122
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 5798737-5799493  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d002089						
					
						Parent gene annotation
						
							Tetratricopeptide repeat (TPR)-like superfamily protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d002089_T079:3
Zm00001d002089_T031:3
Zm00001d002089_T014:3
Zm00001d002089_T085:3
Zm00001d002089_T089:3
Zm00001d002089_T026:3
Zm00001d002089_T048:3
Zm00001d002089_T092:3
Zm00001d002089_T047:3
Zm00001d002089_T029:3
Zm00001d002089_T009:3
Zm00001d002089_T003:3
Zm00001d002089_T039:3
Zm00001d002089_T023:1
Zm00001d002089_T086:3
Zm00001d002089_T084:3
Zm00001d002089_T080:3
Zm00001d002089_T088:3
Zm00001d002089_T090:3
Zm00001d002089_T035:3
Zm00001d002089_T001:1
Zm00001d002089_T033:3
Zm00001d002089_T049:3
Zm00001d002089_T051:2
Zm00001d002089_T032:3
Zm00001d002089_T030:3
Zm00001d002089_T062:3
Zm00001d002089_T075:3
Zm00001d002089_T094:3
Zm00001d002089_T013:1
Zm00001d002089_T016:2
Zm00001d002089_T004:3
Zm00001d002089_T053:3

General Information
CircRNA Name	Zm00001d002089_circ_g.2
ID in PlantcircBase	zma_circ_007029
Alias	Zm02circ00005, ZmciR122
Organism	Zea mays
Position	chr2: 5798737-5799493 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d002089
Parent gene annotation	Tetratricopeptide repeat (TPR)-like superfamily protein
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d002089_T079:3 Zm00001d002089_T031:3 Zm00001d002089_T014:3 Zm00001d002089_T085:3 Zm00001d002089_T089:3 Zm00001d002089_T026:3 Zm00001d002089_T048:3 Zm00001d002089_T092:3 Zm00001d002089_T047:3 Zm00001d002089_T029:3 Zm00001d002089_T009:3 Zm00001d002089_T003:3 Zm00001d002089_T039:3 Zm00001d002089_T023:1 Zm00001d002089_T086:3 Zm00001d002089_T084:3 Zm00001d002089_T080:3 Zm00001d002089_T088:3 Zm00001d002089_T090:3 Zm00001d002089_T035:3 Zm00001d002089_T001:1 Zm00001d002089_T033:3 Zm00001d002089_T049:3 Zm00001d002089_T051:2 Zm00001d002089_T032:3 Zm00001d002089_T030:3 Zm00001d002089_T062:3 Zm00001d002089_T075:3 Zm00001d002089_T094:3 Zm00001d002089_T013:1 Zm00001d002089_T016:2 Zm00001d002089_T004:3 Zm00001d002089_T053:3

			
						 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  
						
							AGGCCAAGGCACAAGGCGAATTGAAGTGGCGAACATACCTTGAGTGTCACCTGGGACTCGTCGG
GGGTGACCACCGTGACGTCTACCACGCTGGGCACCActtcgacgatccggagagcgcagggctt
gagcgccaccacctccgcgccgtcctccagccggtgcccgcgcgcctgcaatgcgacaccacca
cgccgtcc

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 228
Transcript exons: 5798737-5798809,5798993-5799085,5799432-5799493
CTTCGACGATCCGGAGAGCGCAGGGCTTGAGCGCCACCACCTCCGCGCCGTCCTCCAGCCGGTG
CCCGCGCGCCACATGGGAGAGTGAATAGTTTGTCAGGTGACACGTTTCCACGTTCGACCCCAGC
AGCTTCCGCACGTCCAGCACGCGGTCCGTGGATATCCCCTTGAGTGTCACCTGGGACTCGTCGG
GGGTGACCACCGTGACGTCTACCACGCTGGGCACCA
						
						Genomic sequence
						
							CTTCGACGATCCGGAGAGCGCAGGGCTTGAGCGCCACCACCTCCGCGCCGTCCTCCAGCCGGTG
CCCGCGCGCCTGCAATGCGACACCACCACGCCGTCCAGTCAGAATATGAACAAAGGAGCATTTC
TTCCACGCGAGTTTTTACCAAGCCCAGGTAAAAACTAAACGAAATGGATATGAACTTTTGGGGA
GCTGTGTGCCACACGTGCCCGAGGCTGACTTGAGAGAGAGAGAGCCTGCGGAGGCGAAACTTAC
CACATGGGAGAGTGAATAGTTTGTCAGGTGACACGTTTCCACGTTCGACCCCAGCAGCTTCCGC
ACGTCCAGCACGCGGTCCGTGGATATCCCCTACACACACACACAAAAACAAAAAAAAGCACGCG
GAGACGGCGTTAAAACATGTAGGCTTGCTCGCGCGCACACAGACGTACTGATCAAGGCTCACAG
CACTCTCTTGGTTGTCTGTTCCTCATCAGCACAAACACAACTTATCAGTACAATACGGCCGGGT
GTGCTCATCATCTCGCACTGCACTTTTTCTCAAAGAGACGTCAAGGCACTGTTACCATGCATCA
TATCCTCCTTTCCTTTCTGGCTTTCTGCCCCCCTGCTGTCTTGTGTCTTTTATGTGTTCGCGCT
GGAACGAGTGTGTGAGAAGGCCAAGGCACAAGGCGAATTGAAGTGGCGAACATACCTTGAGTGT
CACCTGGGACTCGTCGGGGGTGACCACCGTGACGTCTACCACGCTGGGCACCA

Sequences
Splice junction sequence	AGGCCAAGGCACAAGGCGAATTGAAGTGGCGAACATACCTTGAGTGTCACCTGGGACTCGTCGG GGGTGACCACCGTGACGTCTACCACGCTGGGCACCActtcgacgatccggagagcgcagggctt gagcgccaccacctccgcgccgtcctccagccggtgcccgcgcgcctgcaatgcgacaccacca cgccgtcc
Assembled circRNA sequence	Yes 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	Transcript length: 228 Transcript exons: 5798737-5798809,5798993-5799085,5799432-5799493 CTTCGACGATCCGGAGAGCGCAGGGCTTGAGCGCCACCACCTCCGCGCCGTCCTCCAGCCGGTG CCCGCGCGCCACATGGGAGAGTGAATAGTTTGTCAGGTGACACGTTTCCACGTTCGACCCCAGC AGCTTCCGCACGTCCAGCACGCGGTCCGTGGATATCCCCTTGAGTGTCACCTGGGACTCGTCGG GGGTGACCACCGTGACGTCTACCACGCTGGGCACCA
Genomic sequence	CTTCGACGATCCGGAGAGCGCAGGGCTTGAGCGCCACCACCTCCGCGCCGTCCTCCAGCCGGTG CCCGCGCGCCTGCAATGCGACACCACCACGCCGTCCAGTCAGAATATGAACAAAGGAGCATTTC TTCCACGCGAGTTTTTACCAAGCCCAGGTAAAAACTAAACGAAATGGATATGAACTTTTGGGGA GCTGTGTGCCACACGTGCCCGAGGCTGACTTGAGAGAGAGAGAGCCTGCGGAGGCGAAACTTAC CACATGGGAGAGTGAATAGTTTGTCAGGTGACACGTTTCCACGTTCGACCCCAGCAGCTTCCGC ACGTCCAGCACGCGGTCCGTGGATATCCCCTACACACACACACAAAAACAAAAAAAAGCACGCG GAGACGGCGTTAAAACATGTAGGCTTGCTCGCGCGCACACAGACGTACTGATCAAGGCTCACAG CACTCTCTTGGTTGTCTGTTCCTCATCAGCACAAACACAACTTATCAGTACAATACGGCCGGGT GTGCTCATCATCTCGCACTGCACTTTTTCTCAAAGAGACGTCAAGGCACTGTTACCATGCATCA TATCCTCCTTTCCTTTCTGGCTTTCTGCCCCCCTGCTGTCTTGTGTCTTTTATGTGTTCGCGCT GGAACGAGTGTGTGAGAAGGCCAAGGCACAAGGCGAATTGAAGTGGCGAACATACCTTGAGTGT CACCTGGGACTCGTCGGGGGTGACCACCGTGACGTCTACCACGCTGGGCACCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.096102808

Conservation Information
Conserved circRNAs	NA
PMCS	0.096102808

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							5798999-5799478(-)
						
						Potential amino acid sequence
						
							MWRAGTGWRTARRWWRSSPALSGSSKWCPAW*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	5798999-5799478(-)
Potential amino acid sequence	MWRAGTGWRTARRWWRSSPALSGSSKWCPAW*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d002089_circ_g.2

Address

Any questions?

Supported by