Plant Circular RNA Database

Detail information of Zm00001d027307_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d027307_circ_g.1
					
						ID in PlantcircBase
						zma_circ_006341
					
						Alias
						zma_circ_0000480
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 2524482-2524920  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d027307						
					
						Parent gene annotation
						
							Myosin heavy chain-related protein
							
						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  
						
							GT-AG							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
						Zm00001d027307_T042:2
Zm00001d027307_T038:2
Zm00001d027307_T017:2
Zm00001d027307_T043:2
Zm00001d027307_T010:2
Zm00001d027307_T049:2
Zm00001d027307_T054:2
Zm00001d027307_T040:2
Zm00001d027307_T056:2
Zm00001d027307_T057:2
Zm00001d027307_T058:2
Zm00001d027307_T055:2
Zm00001d027307_T033:2
Zm00001d027307_T035:2
Zm00001d027307_T003:2
Zm00001d027307_T034:2
Zm00001d027307_T039:1
Zm00001d027307_T014:2
Zm00001d027307_T050:2
Zm00001d027307_T059:2
Zm00001d027307_T063:2
Zm00001d027307_T002:2
Zm00001d027307_T026:2
Zm00001d027307_T001:2
Zm00001d027307_T036:2
Zm00001d027307_T047:2
Zm00001d027307_T061:2
Zm00001d027307_T041:2

General Information
CircRNA Name	Zm00001d027307_circ_g.1
ID in PlantcircBase	zma_circ_006341
Alias	zma_circ_0000480
Organism	Zea mays
Position	chr1: 2524482-2524920 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d027307
Parent gene annotation	Myosin heavy chain-related protein
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	GT-AG 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	Zm00001d027307_T042:2 Zm00001d027307_T038:2 Zm00001d027307_T017:2 Zm00001d027307_T043:2 Zm00001d027307_T010:2 Zm00001d027307_T049:2 Zm00001d027307_T054:2 Zm00001d027307_T040:2 Zm00001d027307_T056:2 Zm00001d027307_T057:2 Zm00001d027307_T058:2 Zm00001d027307_T055:2 Zm00001d027307_T033:2 Zm00001d027307_T035:2 Zm00001d027307_T003:2 Zm00001d027307_T034:2 Zm00001d027307_T039:1 Zm00001d027307_T014:2 Zm00001d027307_T050:2 Zm00001d027307_T059:2 Zm00001d027307_T063:2 Zm00001d027307_T002:2 Zm00001d027307_T026:2 Zm00001d027307_T001:2 Zm00001d027307_T036:2 Zm00001d027307_T047:2 Zm00001d027307_T061:2 Zm00001d027307_T041:2

			
						 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  
						
							TGGGGAGATTTTTCTAAATCTGTCTAATTTTCTGAATATAGTCGATCCAACCGCAATCTCTTTG
CCACTGAAGAGATGCAACGCCGGAACAGTTTTACAGgtccctgcagtgtcagacaggctcttcc
tttccatagtttcagtcgacagcggaaggacaattgcaaagtccagcaaagtagcttctcggag
tgggatat

						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: 321
Transcript exons: 2524482-2524679,2524798-2524920
GTCCCTGCAGTGTCAGACAGGCTCTTCCTTTCCATAGTTTCAGTCGACAGCGGAAGGACAATTG
CAAAGTCCAGCAAAGTAGCTTCTCGGAGTGGGATATGCCAGTGGCCTGACACAATCTTGGAACC
CATATGGTTCTCCAAGGACGAAGTCTCCAAAGAATTCGAAGATTGCCAGTACAAGATTATTGTT
TCCTTGGGATCGACAAAATCTGGCATTCTTGGGGAGATTTTTCTAAATCTGTCTAATTTTCTGA
ATATAGTCGATCCAACCGCAATCTCTTTGCCACTGAAGAGATGCAACGCCGGAACAGTTTTACA
G
						
						Genomic sequence
						
							GTCCCTGCAGTGTCAGACAGGCTCTTCCTTTCCATAGTTTCAGTCGACAGCGGAAGGACAATTG
CAAAGTCCAGCAAAGTAGCTTCTCGGAGTGGGATATGCCAGTGGCCTGACACAATCTTGGAACC
CATATGGTTCTCCAAGGACGAAGTCTCCAAAGAATTCGAAGATTGCCAGTACAAGATTATTGTT
TCCTTGGTCTGTACTGGAATGCATACCTCACCTGTTCTTCTTGGATGTTCGCTTCCTGCTTCAA
TCTTGATACCATTGTTGGGTCTGTCACTAACAACTGCCCTCGTGTAATGTTCTGTTCCAGGGAT
CGACAAAATCTGGCATTCTTGGGGAGATTTTTCTAAATCTGTCTAATTTTCTGAATATAGTCGA
TCCAACCGCAATCTCTTTGCCACTGAAGAGATGCAACGCCGGAACAGTTTTACAG

Sequences
Splice junction sequence	TGGGGAGATTTTTCTAAATCTGTCTAATTTTCTGAATATAGTCGATCCAACCGCAATCTCTTTG CCACTGAAGAGATGCAACGCCGGAACAGTTTTACAGgtccctgcagtgtcagacaggctcttcc tttccatagtttcagtcgacagcggaaggacaattgcaaagtccagcaaagtagcttctcggag tgggatat
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: 321 Transcript exons: 2524482-2524679,2524798-2524920 GTCCCTGCAGTGTCAGACAGGCTCTTCCTTTCCATAGTTTCAGTCGACAGCGGAAGGACAATTG CAAAGTCCAGCAAAGTAGCTTCTCGGAGTGGGATATGCCAGTGGCCTGACACAATCTTGGAACC CATATGGTTCTCCAAGGACGAAGTCTCCAAAGAATTCGAAGATTGCCAGTACAAGATTATTGTT TCCTTGGGATCGACAAAATCTGGCATTCTTGGGGAGATTTTTCTAAATCTGTCTAATTTTCTGA ATATAGTCGATCCAACCGCAATCTCTTTGCCACTGAAGAGATGCAACGCCGGAACAGTTTTACA G
Genomic sequence	GTCCCTGCAGTGTCAGACAGGCTCTTCCTTTCCATAGTTTCAGTCGACAGCGGAAGGACAATTG CAAAGTCCAGCAAAGTAGCTTCTCGGAGTGGGATATGCCAGTGGCCTGACACAATCTTGGAACC CATATGGTTCTCCAAGGACGAAGTCTCCAAAGAATTCGAAGATTGCCAGTACAAGATTATTGTT TCCTTGGTCTGTACTGGAATGCATACCTCACCTGTTCTTCTTGGATGTTCGCTTCCTGCTTCAA TCTTGATACCATTGTTGGGTCTGTCACTAACAACTGCCCTCGTGTAATGTTCTGTTCCAGGGAT CGACAAAATCTGGCATTCTTGGGGAGATTTTTCTAAATCTGTCTAATTTTCTGAATATAGTCGA TCCAACCGCAATCTCTTTGCCACTGAAGAGATGCAACGCCGGAACAGTTTTACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.150487101

Conservation Information
Conserved circRNAs	NA
PMCS	0.150487101

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							2524897-2524591(+)
2524819-2524484(-)
						
						Potential amino acid sequence
						
							MQRRNSFTGPCSVRQALPFHSFSRQRKDNCKVQQSSFSEWDMPVA*(+)
MPDFVDPKETIILYWQSSNSLETSSLENHMGSKIVSGHWHIPLREATLLDFAIVLPLSTETMER
KSLSDTAGTCKTVPALHLFSGKEIAVGSTIFRKLDRFRKISPRMPDFVDPKETIILYWQSSNSL
ETSSLENHMGSKIVSGHWHIPLREATLLDFAIVLPLSTETMERKSLSDTAGTCKTVPALHLFSG
KEIAVGSTIFRKLDRFRKISPRMPDFVDPKETIILYWQSSNSLETSSLENHMGSKIVSGHWHIP
LREATLLDFAIVLPLSTETMERKSLSDTAGTCKTVPALHLFSGKEIAVGSTIFRKLDRFRKISP
RMPDFVDPKETIILYWQSSNSLETSSLENHMGSKIVSGHWHIPLREATLLDFAIVLPLSTETME
RKSLSDTAG(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	2524897-2524591(+) 2524819-2524484(-)
Potential amino acid sequence	MQRRNSFTGPCSVRQALPFHSFSRQRKDNCKVQQSSFSEWDMPVA*(+) MPDFVDPKETIILYWQSSNSLETSSLENHMGSKIVSGHWHIPLREATLLDFAIVLPLSTETMER KSLSDTAGTCKTVPALHLFSGKEIAVGSTIFRKLDRFRKISPRMPDFVDPKETIILYWQSSNSL ETSSLENHMGSKIVSGHWHIPLREATLLDFAIVLPLSTETMERKSLSDTAGTCKTVPALHLFSG KEIAVGSTIFRKLDRFRKISPRMPDFVDPKETIILYWQSSNSLETSSLENHMGSKIVSGHWHIP LREATLLDFAIVLPLSTETMERKSLSDTAGTCKTVPALHLFSGKEIAVGSTIFRKLDRFRKISP RMPDFVDPKETIILYWQSSNSLETSSLENHMGSKIVSGHWHIPLREATLLDFAIVLPLSTETME RKSLSDTAG(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d027307_circ_g.1

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