Plant Circular RNA Database

Detail information of Zm00001d030282_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d030282_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006612
					
						Alias
						Zm01circ00096, GRMZM2G038973_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 118841898-118842876  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d030282						
					
						Parent gene annotation
						
							Probable alpha-mannosidase 
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d030282_circ_g.1 Zm00001d030282_circ_g.3 						
					
						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
						Zm00001d030282_T034:5
Zm00001d030282_T008:5
Zm00001d030282_T028:5
Zm00001d030282_T002:5
Zm00001d030282_T013:5
Zm00001d030282_T017:5
Zm00001d030282_T030:5
Zm00001d030282_T040:5
Zm00001d030282_T010:5
Zm00001d030282_T018:5
Zm00001d030282_T016:5
Zm00001d030282_T015:5
Zm00001d030282_T044:4
Zm00001d030282_T009:5
Zm00001d030282_T014:5
Zm00001d030282_T005:5
Zm00001d030282_T011:5
Zm00001d030282_T007:5
Zm00001d030282_T019:5
Zm00001d030282_T012:5
Zm00001d030282_T037:5
Zm00001d030282_T031:5
Zm00001d030282_T035:5
Zm00001d030282_T039:5
Zm00001d030282_T036:5
Zm00001d030282_T043:5
Zm00001d030282_T003:5
Zm00001d030282_T006:5

General Information
CircRNA Name	Zm00001d030282_circ_g.2
ID in PlantcircBase	zma_circ_006612
Alias	Zm01circ00096, GRMZM2G038973_C1
Organism	Zea mays
Position	chr1: 118841898-118842876 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d030282
Parent gene annotation	Probable alpha-mannosidase
Parent gene strand	-
Alternative splicing	Zm00001d030282_circ_g.1 Zm00001d030282_circ_g.3
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	Zm00001d030282_T034:5 Zm00001d030282_T008:5 Zm00001d030282_T028:5 Zm00001d030282_T002:5 Zm00001d030282_T013:5 Zm00001d030282_T017:5 Zm00001d030282_T030:5 Zm00001d030282_T040:5 Zm00001d030282_T010:5 Zm00001d030282_T018:5 Zm00001d030282_T016:5 Zm00001d030282_T015:5 Zm00001d030282_T044:4 Zm00001d030282_T009:5 Zm00001d030282_T014:5 Zm00001d030282_T005:5 Zm00001d030282_T011:5 Zm00001d030282_T007:5 Zm00001d030282_T019:5 Zm00001d030282_T012:5 Zm00001d030282_T037:5 Zm00001d030282_T031:5 Zm00001d030282_T035:5 Zm00001d030282_T039:5 Zm00001d030282_T036:5 Zm00001d030282_T043:5 Zm00001d030282_T003:5 Zm00001d030282_T006:5

			
						 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  
						
							TGTCCAGAAGTACCGAACACAGCTTTTAGCAAAGCCAAAAGTTGTTACTAACCGTGTATTCAAC
TTCAGCATGCTCCTTGTTCTTGTAGAGTCGTGTAATcgttagcccttggcaatcttgatccaca
caaaccacttcatcaagtggctccgcgacacctctgccatcatctttaagcaaacgcctgaaat
cagcaaca

						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
						
							CGTTAGCCCTTGGCAATCTTGATCCACACAAACCACTTCATCAAGTGGCTCCGCGACACCTCTG
CCATCATCTTTAAGCAAACGCCTGAAATCAGCAACATTTGTGGTCAGAGAGAGTTTATGTGTGC
AAGGGATCCAAACAGGCCGTGTTAGCCAATACCTGTGTAGCATAATCTCTAGCTGACCATCCTG
AATGCTGGATGCTCCGGCAGCACGGTCCACAAGGACAGATAGTTCATATTTCTCATCTACTATG
TACACTCCGAGATTAACCTGGACAGCCAACATGGCAAAAAATATTTAACAAGGAGAACAGGTTG
CTTTGATGCGATGTTATTACTCTGTTCACTATGTACCACACATACGTACAGTAACATCAATTTG
CAAGTGACGTCACTCTGTTTACGTGAGCTTTCACTTACCGGGTAGTAATTTCCTGCAACTGGTT
GAGTCACTTGAAGGTTCCAATCCTCCCTGTAGTTTCTCACCTGCAAATGAATATCACAGTGAAT
CTGATGCAGGTAGAACGAAACAAGACAAATACTTCAGATGGGCTCCCACATTTGCCTAAAAGCT
GGGAATGATCTAGTTAACATTATACTAATGGTGTGATTTTTAAAGAAATAATAATAGCAAATAT
CTAAAGTTTGTACATTATATATCATTACCCTTTTGAGGAAATCCCTTCCATTGGAATCTGTATA
AAATGTACTGTTTGTACTCATATTTGCTGTCAACTGTGTGATAACCTCCTTTCCTACGTCATCG
TCAACAGGGATTGGCCCAATCTGTGACAAACCAGAGCAACCAATATAGTAAATTTGATTTTGAA
TAATATATAGATATCCCAAAATATGCTGCATCACAGTAGTATTATATTGTCCAGAAGTACCGAA
CACAGCTTTTAGCAAAGCCAAAAGTTGTTACTAACCGTGTATTCAACTTCAGCATGCTCCTTGT
TCTTGTAGAGTCGTGTAAT

Sequences
Splice junction sequence	TGTCCAGAAGTACCGAACACAGCTTTTAGCAAAGCCAAAAGTTGTTACTAACCGTGTATTCAAC TTCAGCATGCTCCTTGTTCTTGTAGAGTCGTGTAATcgttagcccttggcaatcttgatccaca caaaccacttcatcaagtggctccgcgacacctctgccatcatctttaagcaaacgcctgaaat cagcaaca
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	CGTTAGCCCTTGGCAATCTTGATCCACACAAACCACTTCATCAAGTGGCTCCGCGACACCTCTG CCATCATCTTTAAGCAAACGCCTGAAATCAGCAACATTTGTGGTCAGAGAGAGTTTATGTGTGC AAGGGATCCAAACAGGCCGTGTTAGCCAATACCTGTGTAGCATAATCTCTAGCTGACCATCCTG AATGCTGGATGCTCCGGCAGCACGGTCCACAAGGACAGATAGTTCATATTTCTCATCTACTATG TACACTCCGAGATTAACCTGGACAGCCAACATGGCAAAAAATATTTAACAAGGAGAACAGGTTG CTTTGATGCGATGTTATTACTCTGTTCACTATGTACCACACATACGTACAGTAACATCAATTTG CAAGTGACGTCACTCTGTTTACGTGAGCTTTCACTTACCGGGTAGTAATTTCCTGCAACTGGTT GAGTCACTTGAAGGTTCCAATCCTCCCTGTAGTTTCTCACCTGCAAATGAATATCACAGTGAAT CTGATGCAGGTAGAACGAAACAAGACAAATACTTCAGATGGGCTCCCACATTTGCCTAAAAGCT GGGAATGATCTAGTTAACATTATACTAATGGTGTGATTTTTAAAGAAATAATAATAGCAAATAT CTAAAGTTTGTACATTATATATCATTACCCTTTTGAGGAAATCCCTTCCATTGGAATCTGTATA AAATGTACTGTTTGTACTCATATTTGCTGTCAACTGTGTGATAACCTCCTTTCCTACGTCATCG TCAACAGGGATTGGCCCAATCTGTGACAAACCAGAGCAACCAATATAGTAAATTTGATTTTGAA TAATATATAGATATCCCAAAATATGCTGCATCACAGTAGTATTATATTGTCCAGAAGTACCGAA CACAGCTTTTAGCAAAGCCAAAAGTTGTTACTAACCGTGTATTCAACTTCAGCATGCTCCTTGT TCTTGTAGAGTCGTGTAAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.044144884

Conservation Information
Conserved circRNAs	NA
PMCS	0.044144884

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							118842624-118841900(-)
						
						Potential amino acid sequence
						
							MSTNSTFYTDSNGRDFLKRVRNYREDWNLQVTQPVAGNYYPVNLGVYIVDEKYELSVLVDRAAG
ASSIQDGQLEIMLHRRLLKDDGRGVAEPLDEVVCVDQDCQGLTITRLYKNKEHAEVEYTIGPIP
VDDDVGKEVITQLTANMSTNSTFYTDSNGRDFLKRVRNYREDWNLQVTQPVAGNYYPVNLGVYI
VDEKYELSVLVDRAAGASSIQDGQLEIMLHRRLLKDDGRGVAEPLDEVVCVDQDCQGLTITRLY
KNKEHAEVEYTIGPIPVDDDVGKEVITQLTANMSTNSTFYTDSNGRDFLKRVRNYREDWNLQVT
QPVAGNYYPVNLGVYIVDEKYELSVLVDRAAGASSIQDGQLEIMLHRRLLKDDGRGVAEPLDEV
VCVDQDCQGLTITRLYKNKEHAEVEYTIGPIPVDDDVGKEVITQLTANMSTNSTFYTDSNGRDF
LKRVRNYREDWNLQVTQPVAGNYYPVNLGVYIVDEKYELSVLVDRAAGASSIQDGQLEIMLHRR
LLKDDGRGVAEPLDEVVCVDQDCQGLT(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	118842624-118841900(-)
Potential amino acid sequence	MSTNSTFYTDSNGRDFLKRVRNYREDWNLQVTQPVAGNYYPVNLGVYIVDEKYELSVLVDRAAG ASSIQDGQLEIMLHRRLLKDDGRGVAEPLDEVVCVDQDCQGLTITRLYKNKEHAEVEYTIGPIP VDDDVGKEVITQLTANMSTNSTFYTDSNGRDFLKRVRNYREDWNLQVTQPVAGNYYPVNLGVYI VDEKYELSVLVDRAAGASSIQDGQLEIMLHRRLLKDDGRGVAEPLDEVVCVDQDCQGLTITRLY KNKEHAEVEYTIGPIPVDDDVGKEVITQLTANMSTNSTFYTDSNGRDFLKRVRNYREDWNLQVT QPVAGNYYPVNLGVYIVDEKYELSVLVDRAAGASSIQDGQLEIMLHRRLLKDDGRGVAEPLDEV VCVDQDCQGLTITRLYKNKEHAEVEYTIGPIPVDDDVGKEVITQLTANMSTNSTFYTDSNGRDF LKRVRNYREDWNLQVTQPVAGNYYPVNLGVYIVDEKYELSVLVDRAAGASSIQDGQLEIMLHRR LLKDDGRGVAEPLDEVVCVDQDCQGLT(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

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

circRNA

Detail information of Zm00001d030282_circ_g.2

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