Plant Circular RNA Database

Detail information of Zm00001d036609_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d036609_circ_g.1
					
						ID in PlantcircBase
						zma_circ_008972
					
						Alias
						Zm06circ00031
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 94236904-94238188  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d036609						
					
						Parent gene annotation
						
							protein_coding
							
						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  
						
							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
						Zm00001d036609_T005:5
Zm00001d036609_T007:4
Zm00001d036609_T014:5
Zm00001d036609_T015:3
Zm00001d036609_T026:5
Zm00001d036609_T028:3
Zm00001d036609_T017:5
Zm00001d036609_T013:5
Zm00001d036609_T004:5
Zm00001d036609_T010:5
Zm00001d036609_T025:4
Zm00001d036609_T023:2
Zm00001d036609_T012:4
Zm00001d036609_T016:3
Zm00001d036609_T002:5
Zm00001d036609_T008:5
Zm00001d036609_T024:3
Zm00001d036609_T009:5
Zm00001d036609_T019:4
Zm00001d036609_T011:5
Zm00001d036609_T018:5
Zm00001d036609_T006:4
Zm00001d036609_T021:3
Zm00001d036609_T020:5
Zm00001d036609_T001:5
Zm00001d036609_T003:5
Zm00001d036609_T022:4
Zm00001d036609_T027:3

General Information
CircRNA Name	Zm00001d036609_circ_g.1
ID in PlantcircBase	zma_circ_008972
Alias	Zm06circ00031
Organism	Zea mays
Position	chr6: 94236904-94238188 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d036609
Parent gene annotation	protein_coding
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	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	Zm00001d036609_T005:5 Zm00001d036609_T007:4 Zm00001d036609_T014:5 Zm00001d036609_T015:3 Zm00001d036609_T026:5 Zm00001d036609_T028:3 Zm00001d036609_T017:5 Zm00001d036609_T013:5 Zm00001d036609_T004:5 Zm00001d036609_T010:5 Zm00001d036609_T025:4 Zm00001d036609_T023:2 Zm00001d036609_T012:4 Zm00001d036609_T016:3 Zm00001d036609_T002:5 Zm00001d036609_T008:5 Zm00001d036609_T024:3 Zm00001d036609_T009:5 Zm00001d036609_T019:4 Zm00001d036609_T011:5 Zm00001d036609_T018:5 Zm00001d036609_T006:4 Zm00001d036609_T021:3 Zm00001d036609_T020:5 Zm00001d036609_T001:5 Zm00001d036609_T003:5 Zm00001d036609_T022:4 Zm00001d036609_T027:3

			
						 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  
						
							GCAGATAATCCGCCAAAAGCACTTGCTTCTACCAGTCCTGGAAGCGTGGCGACTAGCTGGAGCA
AATCAGATTCTGTGCGATGAAAAGCAAGTGAAAGAGaatcaactatcaaagaggacaaacaggt
tggttgatgagagcaaaggagccctccaagaagttgatcgatctgggcgtttgtttccttccgt
ttgatgtg

									
								

					

						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: 880
Transcript exons: 94236904-94237071,94237169-94237517,94237632-94237822,94
237911-94237986,94238093-94238188
AATCAACTATCAAAGAGGACAAACAGGTTGGTTGATGAGAGCAAAGGAGCCCTCCAAGAAGTTG
ATCGATCTGGGCGTTTGTTTCCTTCCGTTTGATGTGACCATCAGGGAGACCGTCGATTGCTTCA
GAAGCAAAGGGCTCATCTAGCCATGTGAACATTTCCAGATGTACCAGGGTTACTATTGCTTACT
AGAATGAGGCGAGAGCTGCTTAGCTCCTTTGACATTCCTTCTACTTAGTGGCAATTGGTTTGGT
TACTTAAACCTATGCTCCATATGATCCACGCTGATTGAATTTTGGTTTGTTAATATGTTTTGGG
CAAGCAGTGCTATGAGATGGAGATGATGGTTAGGCATGATCTTTCTATAGGTTAAAAGAACAGA
TTATCCAACAGCTGATGGAACCTGCATTAGAGATATTATGTTGATGTCACAGATTTAGTTGATG
CTCATGTGAAAGCGCTCAACAAGGCAGACACTAGAAAAGTCAGTATTTACAACGTTGGAACAGG
AAGAGATAGAGAGGCCCGCAAATAGTTAATCTGGGACAACATATCTCTGTACTGGCCATAGAGG
ACAACAAAAAAAATCAAAAGTTGAAGAATCACCAACGGTGCCTCCTTTGCACCCTCCAGCTCAA
GAACCTGGGCCCGAGCCAGTTCAACAAGTCATGCCCACAGCTGAAGTGCTGAACCAACAGATTT
ACTGGGAATCAATGAATCAGCCCGAGGCACATCTGAAATAGATCAAAACAAGGTAGTCGCCTTG
GTCGTGGTTCCACATGATAATCCGCCAAAAGCACTTGCTTCTACCAGTCCTGGAAGCGTGGCGA
CTAGCTGGAGCAAATCAGATTCTGTGCGATGAAAAGCAAGTGAAAGAG
						
					

						Genomic sequence
						
							AATCAACTATCAAAGAGGACAAACAGGTTGGTTGATGAGAGCAAAGGAGCCCTCCAAGAAGTTG
ATCGATCTGGGCGTTTGTTTCCTTCCGTTTGATGTGACCATCAGGGAGACCGTCGATTGCTTCA
GAAGCAAAGGGCTCATCTAGCCATGTGAACATTTCCAGATGTACGTTTTATTCTATAGAACTGC
TACAGTAATACTTGGCTCATATTAAACCGCCTAAACGCACTGGAAAAAACTAAACTATATGATA
ATGATATAGGTACCAGGGTTACTATTGCTTACTAGAATGAGGCGAGAGCTGCTTAGCTCCTTTG
ACATTCCTTCTACTTAGTGGCAATTGGTTTGGTTACTTAAACCTATGCTCCATATGATCCACGC
TGATTGAATTTTGGTTTGTTAATATGTTTTGGGCAAGCAGTGCTATGAGATGGAGATGATGGTT
AGGCATGATCTTTCTATAGGTTAAAAGAACAGATTATCCAACAGCTGATGGAACCTGCATTAGA
GATATTATGTTGATGTCACAGATTTAGTTGATGCTCATGTGAAAGCGCTCAACAAGGCAGACAC
TAGAAAAGTCAGTATTTACAACGTTGGAACAGGAAGAGGTTTGGTAACACGAGAATTGTTTATT
TATTTGTATAACTATTATTTATTCATGTGGATAGTTGTACCCTGCACAGGTTTTAATCAATACT
TTACTTAATTTACATGGTAACAAGATAGAGAGGCCCGCAAATAGTTAATCTGGGACAACATATC
TCTGTACTGGCCATAGAGGACAACAAAAAAAATCAAAAGTTGAAGAATCACCAACGGTGCCTCC
TTTGCACCCTCCAGCTCAAGAACCTGGGCCCGAGCCAGTTCAACAAGTCATGCCCACAGCTGAA
GTGCTGAACCAACAGATTTACTGGTAATTTCCAATGATACTGCACTAACAAGGTGCCAATCCTT
ATCATGTTTCGGTCATGTGCCCTAATACTTCCGTATTTTGTTAGTAGGGAATCAATGAATCAGC
CCGAGGCACATCTGAAATAGATCAAAACAAGGTAGTCGCCTTGGTCGTGGTTCCACATGGTAAG
TAGTTATACATCCTACAAATGAAATCCAACTTTTTGTTTGTCATTCCAAGTTTTGAAGGAACGT
TGTGAAGTATATTCATTGTATTCTATTTTTGTGGCAGATAATCCGCCAAAAGCACTTGCTTCTA
CCAGTCCTGGAAGCGTGGCGACTAGCTGGAGCAAATCAGATTCTGTGCGATGAAAAGCAAGTGA
AAGAG
						
					

			
		

Sequences
Splice junction sequence	GCAGATAATCCGCCAAAAGCACTTGCTTCTACCAGTCCTGGAAGCGTGGCGACTAGCTGGAGCA AATCAGATTCTGTGCGATGAAAAGCAAGTGAAAGAGaatcaactatcaaagaggacaaacaggt tggttgatgagagcaaaggagccctccaagaagttgatcgatctgggcgtttgtttccttccgt ttgatgtg
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: 880 Transcript exons: 94236904-94237071,94237169-94237517,94237632-94237822,94 237911-94237986,94238093-94238188 AATCAACTATCAAAGAGGACAAACAGGTTGGTTGATGAGAGCAAAGGAGCCCTCCAAGAAGTTG ATCGATCTGGGCGTTTGTTTCCTTCCGTTTGATGTGACCATCAGGGAGACCGTCGATTGCTTCA GAAGCAAAGGGCTCATCTAGCCATGTGAACATTTCCAGATGTACCAGGGTTACTATTGCTTACT AGAATGAGGCGAGAGCTGCTTAGCTCCTTTGACATTCCTTCTACTTAGTGGCAATTGGTTTGGT TACTTAAACCTATGCTCCATATGATCCACGCTGATTGAATTTTGGTTTGTTAATATGTTTTGGG CAAGCAGTGCTATGAGATGGAGATGATGGTTAGGCATGATCTTTCTATAGGTTAAAAGAACAGA TTATCCAACAGCTGATGGAACCTGCATTAGAGATATTATGTTGATGTCACAGATTTAGTTGATG CTCATGTGAAAGCGCTCAACAAGGCAGACACTAGAAAAGTCAGTATTTACAACGTTGGAACAGG AAGAGATAGAGAGGCCCGCAAATAGTTAATCTGGGACAACATATCTCTGTACTGGCCATAGAGG ACAACAAAAAAAATCAAAAGTTGAAGAATCACCAACGGTGCCTCCTTTGCACCCTCCAGCTCAA GAACCTGGGCCCGAGCCAGTTCAACAAGTCATGCCCACAGCTGAAGTGCTGAACCAACAGATTT ACTGGGAATCAATGAATCAGCCCGAGGCACATCTGAAATAGATCAAAACAAGGTAGTCGCCTTG GTCGTGGTTCCACATGATAATCCGCCAAAAGCACTTGCTTCTACCAGTCCTGGAAGCGTGGCGA CTAGCTGGAGCAAATCAGATTCTGTGCGATGAAAAGCAAGTGAAAGAG
Genomic sequence	AATCAACTATCAAAGAGGACAAACAGGTTGGTTGATGAGAGCAAAGGAGCCCTCCAAGAAGTTG ATCGATCTGGGCGTTTGTTTCCTTCCGTTTGATGTGACCATCAGGGAGACCGTCGATTGCTTCA GAAGCAAAGGGCTCATCTAGCCATGTGAACATTTCCAGATGTACGTTTTATTCTATAGAACTGC TACAGTAATACTTGGCTCATATTAAACCGCCTAAACGCACTGGAAAAAACTAAACTATATGATA ATGATATAGGTACCAGGGTTACTATTGCTTACTAGAATGAGGCGAGAGCTGCTTAGCTCCTTTG ACATTCCTTCTACTTAGTGGCAATTGGTTTGGTTACTTAAACCTATGCTCCATATGATCCACGC TGATTGAATTTTGGTTTGTTAATATGTTTTGGGCAAGCAGTGCTATGAGATGGAGATGATGGTT AGGCATGATCTTTCTATAGGTTAAAAGAACAGATTATCCAACAGCTGATGGAACCTGCATTAGA GATATTATGTTGATGTCACAGATTTAGTTGATGCTCATGTGAAAGCGCTCAACAAGGCAGACAC TAGAAAAGTCAGTATTTACAACGTTGGAACAGGAAGAGGTTTGGTAACACGAGAATTGTTTATT TATTTGTATAACTATTATTTATTCATGTGGATAGTTGTACCCTGCACAGGTTTTAATCAATACT TTACTTAATTTACATGGTAACAAGATAGAGAGGCCCGCAAATAGTTAATCTGGGACAACATATC TCTGTACTGGCCATAGAGGACAACAAAAAAAATCAAAAGTTGAAGAATCACCAACGGTGCCTCC TTTGCACCCTCCAGCTCAAGAACCTGGGCCCGAGCCAGTTCAACAAGTCATGCCCACAGCTGAA GTGCTGAACCAACAGATTTACTGGTAATTTCCAATGATACTGCACTAACAAGGTGCCAATCCTT ATCATGTTTCGGTCATGTGCCCTAATACTTCCGTATTTTGTTAGTAGGGAATCAATGAATCAGC CCGAGGCACATCTGAAATAGATCAAAACAAGGTAGTCGCCTTGGTCGTGGTTCCACATGGTAAG TAGTTATACATCCTACAAATGAAATCCAACTTTTTGTTTGTCATTCCAAGTTTTGAAGGAACGT TGTGAAGTATATTCATTGTATTCTATTTTTGTGGCAGATAATCCGCCAAAAGCACTTGCTTCTA CCAGTCCTGGAAGCGTGGCGACTAGCTGGAGCAAATCAGATTCTGTGCGATGAAAAGCAAGTGA AAGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.172033485

Conservation Information
Conserved circRNAs	NA
PMCS	0.172033485

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							94237985-94236996(+)
94237065-94237951(-)
						
						Potential amino acid sequence
						
							MIIRQKHLLLPVLEAWRLAGANQILCDEKQVKENQLSKRTNRLVDESKGALQEVDRSGRLFPSV
*(+)
MFTWLDEPFASEAIDGLPDGHIKRKETNAQIDQLLGGLLCSHQPTCLSSLIVDSLSLAFHRTES
DLLQLVATLPGLVEASAFGGLSCGTTTKATTLF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	94237985-94236996(+) 94237065-94237951(-)
Potential amino acid sequence	MIIRQKHLLLPVLEAWRLAGANQILCDEKQVKENQLSKRTNRLVDESKGALQEVDRSGRLFPSV (+) MFTWLDEPFASEAIDGLPDGHIKRKETNAQIDQLLGGLLCSHQPTCLSSLIVDSLSLAFHRTES DLLQLVATLPGLVEASAFGGLSCGTTTKATTLF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d036609_circ_g.1

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