Plant Circular RNA Database

Detail information of Zm00001d046688_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d046688_circ_g.1
					
						ID in PlantcircBase
						zma_circ_010001
					
						Alias
						zma_circ_0003033, ZmciR368
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 102444637-102445166  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d046688						
					
						Parent gene annotation
						
							protein_coding
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						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
						Zm00001d046688_T002:2
Zm00001d046688_T001:2
Zm00001d046688_T003:2

General Information
CircRNA Name	Zm00001d046688_circ_g.1
ID in PlantcircBase	zma_circ_010001
Alias	zma_circ_0003033, ZmciR368
Organism	Zea mays
Position	chr9: 102444637-102445166 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d046688
Parent gene annotation	protein_coding
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, root
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	Zm00001d046688_T002:2 Zm00001d046688_T001:2 Zm00001d046688_T003:2

			
						 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  
						
							CGAAGAAGCTCGTGCCCAGCAGCGGCCGCAGCCACGCCGGGCCCAGGTCCTCCTCCGACCGCAC
CGCCGGGCTCCTCGGGCTCGCCACGCTCACCATCACcttgcatccgagggagcagaagcggaag
gagtccgggaggctccggcagcagatctggcaggtgttggtgacgcccttgccgggcctggcct
gcgggcgg

						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: 441
Transcript exons: 102444637-102444852,102444942-102445166
CTTGCATCCGAGGGAGCAGAAGCGGAAGGAGTCCGGGAGGCTCCGGCAGCAGATCTGGCAGGTG
TTGGTGACGCCCTTGCCGGGCCTGGCCTGCGGGCGGCCGTTGAGGAACACGATCTTGGCGCTGT
TGATCACGTACGTCTGCACGTGGGAGATGTCGATCAGCTTCCCCACCTCCGACACCCGGATCAC
GTTGTGGTACGACGACCGACGTATCTGGACGACGTGGTGGTCTCGGTGCGCCGGCAGGCAGTAG
GCGCAGAGGGCGTCGCCCGTGCAGCAGCCGAGGCAGAAGAGGTTGCACTCGTTCTTGCTCAGCT
CCGGGTGCAGCCGGCACGGCACGAAGAAGCTCGTGCCCAGCAGCGGCCGCAGCCACGCCGGGCC
CAGGTCCTCCTCCGACCGCACCGCCGGGCTCCTCGGGCTCGCCACGCTCACCATCAC
						
						Genomic sequence
						
							CTTGCATCCGAGGGAGCAGAAGCGGAAGGAGTCCGGGAGGCTCCGGCAGCAGATCTGGCAGGTG
TTGGTGACGCCCTTGCCGGGCCTGGCCTGCGGGCGGCCGTTGAGGAACACGATCTTGGCGCTGT
TGATCACGTACGTCTGCACGTGGGAGATGTCGATCAGCTTCCCCACCTCCGACACCCGGATCAC
GTTGTGGTACGACGACCGACGTATCTGCATGCCAGCATGCGCCGACTAGAACTATTATATACAT
GCCAAGCCAAGAATGAAGAAGGCAATCAATCGCTCGCCGCCGCGCTGACCTGGACGACGTGGTG
GTCTCGGTGCGCCGGCAGGCAGTAGGCGCAGAGGGCGTCGCCCGTGCAGCAGCCGAGGCAGAAG
AGGTTGCACTCGTTCTTGCTCAGCTCCGGGTGCAGCCGGCACGGCACGAAGAAGCTCGTGCCCA
GCAGCGGCCGCAGCCACGCCGGGCCCAGGTCCTCCTCCGACCGCACCGCCGGGCTCCTCGGGCT
CGCCACGCTCACCATCAC

Sequences
Splice junction sequence	CGAAGAAGCTCGTGCCCAGCAGCGGCCGCAGCCACGCCGGGCCCAGGTCCTCCTCCGACCGCAC CGCCGGGCTCCTCGGGCTCGCCACGCTCACCATCACcttgcatccgagggagcagaagcggaag gagtccgggaggctccggcagcagatctggcaggtgttggtgacgcccttgccgggcctggcct gcgggcgg
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: 441 Transcript exons: 102444637-102444852,102444942-102445166 CTTGCATCCGAGGGAGCAGAAGCGGAAGGAGTCCGGGAGGCTCCGGCAGCAGATCTGGCAGGTG TTGGTGACGCCCTTGCCGGGCCTGGCCTGCGGGCGGCCGTTGAGGAACACGATCTTGGCGCTGT TGATCACGTACGTCTGCACGTGGGAGATGTCGATCAGCTTCCCCACCTCCGACACCCGGATCAC GTTGTGGTACGACGACCGACGTATCTGGACGACGTGGTGGTCTCGGTGCGCCGGCAGGCAGTAG GCGCAGAGGGCGTCGCCCGTGCAGCAGCCGAGGCAGAAGAGGTTGCACTCGTTCTTGCTCAGCT CCGGGTGCAGCCGGCACGGCACGAAGAAGCTCGTGCCCAGCAGCGGCCGCAGCCACGCCGGGCC CAGGTCCTCCTCCGACCGCACCGCCGGGCTCCTCGGGCTCGCCACGCTCACCATCAC
Genomic sequence	CTTGCATCCGAGGGAGCAGAAGCGGAAGGAGTCCGGGAGGCTCCGGCAGCAGATCTGGCAGGTG TTGGTGACGCCCTTGCCGGGCCTGGCCTGCGGGCGGCCGTTGAGGAACACGATCTTGGCGCTGT TGATCACGTACGTCTGCACGTGGGAGATGTCGATCAGCTTCCCCACCTCCGACACCCGGATCAC GTTGTGGTACGACGACCGACGTATCTGCATGCCAGCATGCGCCGACTAGAACTATTATATACAT GCCAAGCCAAGAATGAAGAAGGCAATCAATCGCTCGCCGCCGCGCTGACCTGGACGACGTGGTG GTCTCGGTGCGCCGGCAGGCAGTAGGCGCAGAGGGCGTCGCCCGTGCAGCAGCCGAGGCAGAAG AGGTTGCACTCGTTCTTGCTCAGCTCCGGGTGCAGCCGGCACGGCACGAAGAAGCTCGTGCCCA GCAGCGGCCGCAGCCACGCCGGGCCCAGGTCCTCCTCCGACCGCACCGCCGGGCTCCTCGGGCT CGCCACGCTCACCATCAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.295541062

Conservation Information
Conserved circRNAs	NA
PMCS	0.295541062

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							102445165-102444639(-)
102444645-102444639(-)
						
						Potential amino acid sequence
						
							MVSVASPRSPAVRSEEDLGPAWLRPLLGTSFFVPCRLHPELSKNECNLFCLGCCTGDALCAYCL
PAHRDHHVVQIRRSSYHNVIRVSEVGKLIDISHVQTYVINSAKIVFLNGRPQARPGKGVTNTCQ
ICCRSLPDSFRFCSLGCKVMVSVASPRSPAVRSEEDLGPAWLRPLLGTSFFVPCRLHPELSKNE
CNLFCLGCCTGDALCAYCLPAHRDHHVVQIRRSSYHNVIRVSEVGKLIDISHVQTYVINSAKIV
FLNGRPQARPGKGVTNTCQICCRSLPDSFRFCSLGCKVMVSVASPRSPAVRSEEDLGPAWLRPL
LGTSFFVPCRLHPELSKNECNLFCLGCCTGDALCAYCLPAHRDHHVVQIRRSSYHNVIRVSEVG
KLIDISHVQTYVINSAKIVFLNGRPQARPGKGVTNTCQICCRSLPDSFRFCSLGCKVMVSVASP
RSPAVRSEEDLGPAWLRPLLGTSFFVPCRLHPELSKNECNLFCLGCCTGDALCAYCLPAHRDHH
VVQIRRSSYHNVIRVSEVGKLIDISHVQTYVINSAKIVFLNGRPQARPGKGVTNTCQICCRSLP
DSFRFCSLGCK(-)
MQGDGERGEPEEPGGAVGGGPGPGVAAAAAGHELLRAVPAAPGAEQERVQPLLPRLLHGRRPLR
LLPAGAPRPPRRPDTSVVVPQRDPGVGGGEADRHLPRADVRDQQRQDRVPQRPPAGQARQGRHQ
HLPDLLPEPPGLLPLLLPRMQGDGERGEPEEPGGAVGGGPGPGVAAAAAGHELLRAVPAAPGAE
QERVQPLLPRLLHGRRPLRLLPAGAPRPPRRPDTSVVVPQRDPGVGGGEADRHLPRADVRDQQR
QDRVPQRPPAGQARQGRHQHLPDLLPEPPGLLPLLLPRMQGDGERGEPEEPGGAVGGGPGPGVA
AAAAGHELLRAVPAAPGAEQERVQPLLPRLLHGRRPLRLLPAGAPRPPRRPDTSVVVPQRDPGV
GGGEADRHLPRADVRDQQRQDRVPQRPPAGQARQGRHQHLPDLLPEPPGLLPLLLPRMQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	102445165-102444639(-) 102444645-102444639(-)
Potential amino acid sequence	MVSVASPRSPAVRSEEDLGPAWLRPLLGTSFFVPCRLHPELSKNECNLFCLGCCTGDALCAYCL PAHRDHHVVQIRRSSYHNVIRVSEVGKLIDISHVQTYVINSAKIVFLNGRPQARPGKGVTNTCQ ICCRSLPDSFRFCSLGCKVMVSVASPRSPAVRSEEDLGPAWLRPLLGTSFFVPCRLHPELSKNE CNLFCLGCCTGDALCAYCLPAHRDHHVVQIRRSSYHNVIRVSEVGKLIDISHVQTYVINSAKIV FLNGRPQARPGKGVTNTCQICCRSLPDSFRFCSLGCKVMVSVASPRSPAVRSEEDLGPAWLRPL LGTSFFVPCRLHPELSKNECNLFCLGCCTGDALCAYCLPAHRDHHVVQIRRSSYHNVIRVSEVG KLIDISHVQTYVINSAKIVFLNGRPQARPGKGVTNTCQICCRSLPDSFRFCSLGCKVMVSVASP RSPAVRSEEDLGPAWLRPLLGTSFFVPCRLHPELSKNECNLFCLGCCTGDALCAYCLPAHRDHH VVQIRRSSYHNVIRVSEVGKLIDISHVQTYVINSAKIVFLNGRPQARPGKGVTNTCQICCRSLP DSFRFCSLGCK(-) MQGDGERGEPEEPGGAVGGGPGPGVAAAAAGHELLRAVPAAPGAEQERVQPLLPRLLHGRRPLR LLPAGAPRPPRRPDTSVVVPQRDPGVGGGEADRHLPRADVRDQQRQDRVPQRPPAGQARQGRHQ HLPDLLPEPPGLLPLLLPRMQGDGERGEPEEPGGAVGGGPGPGVAAAAAGHELLRAVPAAPGAE QERVQPLLPRLLHGRRPLRLLPAGAPRPPRRPDTSVVVPQRDPGVGGGEADRHLPRADVRDQQR QDRVPQRPPAGQARQGRHQHLPDLLPEPPGLLPLLLPRMQGDGERGEPEEPGGAVGGGPGPGVA AAAAGHELLRAVPAAPGAEQERVQPLLPRLLHGRRPLRLLPAGAPRPPRRPDTSVVVPQRDPGV GGGEADRHLPRADVRDQQRQDRVPQRPPAGQARQGRHQHLPDLLPEPPGLLPLLLPRMQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d046688_circ_g.1

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