Plant Circular RNA Database

Detail information of Zm00001d016506_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d016506_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008702
					
						Alias
						Zm05circ00094
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 165312877-165314508  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d016506						
					
						Parent gene annotation
						
							Probable UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltr
ansferase SEC
							
						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
						Zm00001d016506_T018:3
Zm00001d016506_T016:5
Zm00001d016506_T002:5
Zm00001d016506_T020:5
Zm00001d016506_T010:5
Zm00001d016506_T006:5
Zm00001d016506_T028:5
Zm00001d016506_T022:5
Zm00001d016506_T026:5
Zm00001d016506_T021:5
Zm00001d016506_T001:5
Zm00001d016506_T012:5
Zm00001d016506_T015:5
Zm00001d016506_T023:4
Zm00001d016506_T011:5
Zm00001d016506_T005:5
Zm00001d016506_T025:5
Zm00001d016506_T004:5
Zm00001d016506_T003:5
Zm00001d016506_T027:5
Zm00001d016506_T017:5
Zm00001d016506_T007:5
Zm00001d016506_T024:5
Zm00001d016506_T019:5

General Information
CircRNA Name	Zm00001d016506_circ_g.2
ID in PlantcircBase	zma_circ_008702
Alias	Zm05circ00094
Organism	Zea mays
Position	chr5: 165312877-165314508 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d016506
Parent gene annotation	Probable UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltr ansferase SEC
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	Zm00001d016506_T018:3 Zm00001d016506_T016:5 Zm00001d016506_T002:5 Zm00001d016506_T020:5 Zm00001d016506_T010:5 Zm00001d016506_T006:5 Zm00001d016506_T028:5 Zm00001d016506_T022:5 Zm00001d016506_T026:5 Zm00001d016506_T021:5 Zm00001d016506_T001:5 Zm00001d016506_T012:5 Zm00001d016506_T015:5 Zm00001d016506_T023:4 Zm00001d016506_T011:5 Zm00001d016506_T005:5 Zm00001d016506_T025:5 Zm00001d016506_T004:5 Zm00001d016506_T003:5 Zm00001d016506_T027:5 Zm00001d016506_T017:5 Zm00001d016506_T007:5 Zm00001d016506_T024:5 Zm00001d016506_T019:5

			
						 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  
						
							TTCTTCTCGTAAACGACATTACCATGCTCTAGAGCCTCTCGGTACTTCCCTGACCTGTAGTTTT
GATGTGCAAGTGCCAAATGTCGCTCTTCATCAACAGctcttgaataaagccttgagctttcatc
agatttccaagattactatgtgcatcaacctaggtcaggcacaaaatggcatcagttcacaaac
aagcacag

									
								

					

						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: 473
Transcript exons: 165312877-165312933,165313006-165313122,165313997-165314
047,165314170-165314268,165314360-165314508
CTCTTGAATAAAGCCTTGAGCTTTCATCAGATTTCCAAGATTACTATGTGCATCAACCAATCGA
GGATTTATAGCAAGTGCCTGTCTACAACATTGAGCTGCCTCATTCAGTCTCCCCTTCCTTGTAT
ATGCGCTAGCGAGATTTGACCATGCATCACAGAAGTTTGGTCGCAGCTGAATAGCAGTAAGATA
GTAACGAATTGCAAGATCAATATCACCTTTCTCCTTCCAAGCATTTGCCATATTGCCGTAGCAT
TCAGCAAAATGTGGATCTATGGCAAGAGCCTCCTCGTTTTTTGCAATGCACATGTCATAATTAC
GAATCTGATAGTATATAGCTCCAAGGAGGAGGAGGTTATCAGTTCGACGTGGATTCTTCTCGTA
AACGACATTACCATGCTCTAGAGCCTCTCGGTACTTCCCTGACCTGTAGTTTTGATGTGCAAGT
GCCAAATGTCGCTCTTCATCAACAG
						
					

						Genomic sequence
						
							CTCTTGAATAAAGCCTTGAGCTTTCATCAGATTTCCAAGATTACTATGTGCATCAACCTAGGTC
AGGCACAAAATGGCATCAGTTCACAAACAAGCACAGCTACTAACTTGATGACCACATGTGCGTA
CCAATCGAGGATTTATAGCAAGTGCCTGTCTACAACATTGAGCTGCCTCATTCAGTCTCCCCTT
CCTTGTATATGCGCTAGCGAGATTTGACCATGCATCACAGAAGTTTGGTCGCAGCTAGGAAGAT
TAAAAAAGACAGATGAGGGCCATTATTTGAAACAATCAGAAGTCAAGTGGACTGGGAAGAATTG
TAGTAGAAGATTACAAACATGAATCCACAAAGCAAAGACAAGAAACTTGTGAAGACCACATCAC
ATATCCATTACAGTGTAGAGTGAAGATGCCCCCGAAATGGAAGCTTCAGAGGTGAGGGGCAGTG
AAGAGCTGGTTGGAACACTTCTTAAATAATGTGCTGCTTTATTGTGCCTCTAGACCAAGTATCA
GCAAGTTCATGTTTCTTTTTCTTGTGTACACAGGAGAACTGCATATCATTGCATTATGAAGCAG
TGCACTCATGTACAACCCAAACAGCTCACAATCAACTCACAATCTAGACATCAACTGAACTACT
TTTAGTATCTCATGCTTTTTACTATAGAGCTAGCATCCTAGCCCAAAGTAGCAGCTTGAAGTAC
CAGGCTATCAGTACAAACAAGGGACCAGAGAGCCAAAAGCCTGAAATACTGGGGAAGATCGCCA
CCTCGAAGTGAATCAAATTTCATCCCTGCACACTATGTCGATTTCCGCTGCACTACAGCCATCT
AGTCACAACAGGAAACATCAAACAAGAACTACCTTAGCATGGCTGGATAGGCTGTCCAGGGTGT
CTAGTGTAGCGTTTACTTACCCCCCCCCCCCCAAAAAAAAAGGTGCTAGGCAATTTTCCAGCAT
CTATGGTCAAGCATTCAGTCACCACCTAGTCATCTTAGATAGTTAGATGAGCATTACCATCAAA
CACCCAGAAGTAAATAATAATAATTTGAAACAATGAAAACAGGTAAAATAAAAAGGTATGAACT
AAGAAAAAGTACAAATAAGACCGGAGAGAAACCTGAATAGCAGTAAGATAGTAACGAATTGCAA
GATCAATATCACCTTTCTCCTGCACAAAAAAAAAACACCAATGACATAAATGAAAAATAAAGGT
TTTTCAGGGGAGGGGGAGATGCATGTACATATAGTAGACACAATAATATTTGTCATGTTTGCCC
GCCCCAAAACTACCTTCCAAGCATTTGCCATATTGCCGTAGCATTCAGCAAAATGTGGATCTAT
GGCAAGAGCCTCCTCGTTTTTTGCAATGCACATGTCATAATTACGAATCTGCAACAGAAAGGGA
AATCAAGCATGTTAGAAAATGACAGGTAAAAAAGCTAGCATCCATACGTGGGAGAATATGAAGT
GAATTAGCCACCTGATAGTATATAGCTCCAAGGAGGAGGAGGTTATCAGTTCGACGTGGATTCT
TCTCGTAAACGACATTACCATGCTCTAGAGCCTCTCGGTACTTCCCTGACCTGTAGTTTTGATG
TGCAAGTGCCAAATGTCGCTCTTCATCAACAG
						
					

			
		

Sequences
Splice junction sequence	TTCTTCTCGTAAACGACATTACCATGCTCTAGAGCCTCTCGGTACTTCCCTGACCTGTAGTTTT GATGTGCAAGTGCCAAATGTCGCTCTTCATCAACAGctcttgaataaagccttgagctttcatc agatttccaagattactatgtgcatcaacctaggtcaggcacaaaatggcatcagttcacaaac aagcacag
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: 473 Transcript exons: 165312877-165312933,165313006-165313122,165313997-165314 047,165314170-165314268,165314360-165314508 CTCTTGAATAAAGCCTTGAGCTTTCATCAGATTTCCAAGATTACTATGTGCATCAACCAATCGA GGATTTATAGCAAGTGCCTGTCTACAACATTGAGCTGCCTCATTCAGTCTCCCCTTCCTTGTAT ATGCGCTAGCGAGATTTGACCATGCATCACAGAAGTTTGGTCGCAGCTGAATAGCAGTAAGATA GTAACGAATTGCAAGATCAATATCACCTTTCTCCTTCCAAGCATTTGCCATATTGCCGTAGCAT TCAGCAAAATGTGGATCTATGGCAAGAGCCTCCTCGTTTTTTGCAATGCACATGTCATAATTAC GAATCTGATAGTATATAGCTCCAAGGAGGAGGAGGTTATCAGTTCGACGTGGATTCTTCTCGTA AACGACATTACCATGCTCTAGAGCCTCTCGGTACTTCCCTGACCTGTAGTTTTGATGTGCAAGT GCCAAATGTCGCTCTTCATCAACAG
Genomic sequence	CTCTTGAATAAAGCCTTGAGCTTTCATCAGATTTCCAAGATTACTATGTGCATCAACCTAGGTC AGGCACAAAATGGCATCAGTTCACAAACAAGCACAGCTACTAACTTGATGACCACATGTGCGTA CCAATCGAGGATTTATAGCAAGTGCCTGTCTACAACATTGAGCTGCCTCATTCAGTCTCCCCTT CCTTGTATATGCGCTAGCGAGATTTGACCATGCATCACAGAAGTTTGGTCGCAGCTAGGAAGAT TAAAAAAGACAGATGAGGGCCATTATTTGAAACAATCAGAAGTCAAGTGGACTGGGAAGAATTG TAGTAGAAGATTACAAACATGAATCCACAAAGCAAAGACAAGAAACTTGTGAAGACCACATCAC ATATCCATTACAGTGTAGAGTGAAGATGCCCCCGAAATGGAAGCTTCAGAGGTGAGGGGCAGTG AAGAGCTGGTTGGAACACTTCTTAAATAATGTGCTGCTTTATTGTGCCTCTAGACCAAGTATCA GCAAGTTCATGTTTCTTTTTCTTGTGTACACAGGAGAACTGCATATCATTGCATTATGAAGCAG TGCACTCATGTACAACCCAAACAGCTCACAATCAACTCACAATCTAGACATCAACTGAACTACT TTTAGTATCTCATGCTTTTTACTATAGAGCTAGCATCCTAGCCCAAAGTAGCAGCTTGAAGTAC CAGGCTATCAGTACAAACAAGGGACCAGAGAGCCAAAAGCCTGAAATACTGGGGAAGATCGCCA CCTCGAAGTGAATCAAATTTCATCCCTGCACACTATGTCGATTTCCGCTGCACTACAGCCATCT AGTCACAACAGGAAACATCAAACAAGAACTACCTTAGCATGGCTGGATAGGCTGTCCAGGGTGT CTAGTGTAGCGTTTACTTACCCCCCCCCCCCCAAAAAAAAAGGTGCTAGGCAATTTTCCAGCAT CTATGGTCAAGCATTCAGTCACCACCTAGTCATCTTAGATAGTTAGATGAGCATTACCATCAAA CACCCAGAAGTAAATAATAATAATTTGAAACAATGAAAACAGGTAAAATAAAAAGGTATGAACT AAGAAAAAGTACAAATAAGACCGGAGAGAAACCTGAATAGCAGTAAGATAGTAACGAATTGCAA GATCAATATCACCTTTCTCCTGCACAAAAAAAAAACACCAATGACATAAATGAAAAATAAAGGT TTTTCAGGGGAGGGGGAGATGCATGTACATATAGTAGACACAATAATATTTGTCATGTTTGCCC GCCCCAAAACTACCTTCCAAGCATTTGCCATATTGCCGTAGCATTCAGCAAAATGTGGATCTAT GGCAAGAGCCTCCTCGTTTTTTGCAATGCACATGTCATAATTACGAATCTGCAACAGAAAGGGA AATCAAGCATGTTAGAAAATGACAGGTAAAAAAGCTAGCATCCATACGTGGGAGAATATGAAGT GAATTAGCCACCTGATAGTATATAGCTCCAAGGAGGAGGAGGTTATCAGTTCGACGTGGATTCT TCTCGTAAACGACATTACCATGCTCTAGAGCCTCTCGGTACTTCCCTGACCTGTAGTTTTGATG TGCAAGTGCCAAATGTCGCTCTTCATCAACAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.074788604

Conservation Information
Conserved circRNAs	NA
PMCS	0.074788604

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							165314255-165314439(-)
						
						Potential amino acid sequence
						
							MCIAKNEEALAIDPHFAECYGNMANAWKEKGDIDLAIRYYLTAIQLRPNFCDAWSNLASAYTRK
GRLNEAAQCCRQALAINPRLVDAHSNLGNLMKAQGFIQELLMKSDIWHLHIKTTGQGSTERL*(
-)
						
						Sponge-miRNAs
						
							zma-miR827-3p 						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	165314255-165314439(-)
Potential amino acid sequence	MCIAKNEEALAIDPHFAECYGNMANAWKEKGDIDLAIRYYLTAIQLRPNFCDAWSNLASAYTRK GRLNEAAQCCRQALAINPRLVDAHSNLGNLMKAQGFIQELLMKSDIWHLHIKTTGQGSTERL*( -)
Sponge-miRNAs	zma-miR827-3p
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d016506_circ_g.2

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