Plant Circular RNA Database

Detail information of Zm00001d022586_circ_g.3

			
						 General Information
					
						CircRNA Name
						Zm00001d022586_circ_g.3
					
						ID in PlantcircBase
						zma_circ_002661
					
						Alias
						circ1245
					
						Organism
						
							Zea mays						
					
						Position
						
							chr7: 180358251-180362058  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d022586						
					
						Parent gene annotation
						
							HEAT repeat-containing protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d022586_circ_g.2 Zm00001d022586_circ_g.4 Zm00001d022586_circ_g.5 						
					
						Support reads
						3
					
						Tissues
						seedling leaves
					
						Exon boundary  
						
							No-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-CA							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
						Zm00001d022586_T020:7
Zm00001d022586_T005:6
Zm00001d022586_T014:7
Zm00001d022586_T012:7
Zm00001d022586_T007:7
Zm00001d022586_T037:7
Zm00001d022586_T003:7
Zm00001d022586_T011:7
Zm00001d022586_T023:7
Zm00001d022586_T032:7
Zm00001d022586_T013:7
Zm00001d022586_T021:7
Zm00001d022586_T016:7
Zm00001d022586_T034:7
Zm00001d022586_T029:7
Zm00001d022586_T036:7
Zm00001d022586_T038:7
Zm00001d022586_T018:7
Zm00001d022586_T033:7
Zm00001d022586_T004:5
Zm00001d022586_T028:7
Zm00001d022586_T008:7
Zm00001d022586_T010:7
Zm00001d022586_T026:7
Zm00001d022586_T006:6
Zm00001d022586_T001:6
Zm00001d022586_T031:7
Zm00001d022586_T027:7
Zm00001d022586_T002:5
Zm00001d022586_T009:7
Zm00001d022586_T017:7
Zm00001d022586_T025:5
Zm00001d022586_T022:7
Zm00001d022586_T030:7
Zm00001d022586_T019:7
Zm00001d022586_T024:7
Zm00001d022586_T015:7
Zm00001d022586_T035:7

General Information
CircRNA Name	Zm00001d022586_circ_g.3
ID in PlantcircBase	zma_circ_002661
Alias	circ1245
Organism	Zea mays
Position	chr7: 180358251-180362058 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRI
Parent gene	Zm00001d022586
Parent gene annotation	HEAT repeat-containing protein
Parent gene strand	+
Alternative splicing	Zm00001d022586_circ_g.2 Zm00001d022586_circ_g.4 Zm00001d022586_circ_g.5
Support reads	3
Tissues	seedling leaves
Exon boundary	No-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-CA 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	Zm00001d022586_T020:7 Zm00001d022586_T005:6 Zm00001d022586_T014:7 Zm00001d022586_T012:7 Zm00001d022586_T007:7 Zm00001d022586_T037:7 Zm00001d022586_T003:7 Zm00001d022586_T011:7 Zm00001d022586_T023:7 Zm00001d022586_T032:7 Zm00001d022586_T013:7 Zm00001d022586_T021:7 Zm00001d022586_T016:7 Zm00001d022586_T034:7 Zm00001d022586_T029:7 Zm00001d022586_T036:7 Zm00001d022586_T038:7 Zm00001d022586_T018:7 Zm00001d022586_T033:7 Zm00001d022586_T004:5 Zm00001d022586_T028:7 Zm00001d022586_T008:7 Zm00001d022586_T010:7 Zm00001d022586_T026:7 Zm00001d022586_T006:6 Zm00001d022586_T001:6 Zm00001d022586_T031:7 Zm00001d022586_T027:7 Zm00001d022586_T002:5 Zm00001d022586_T009:7 Zm00001d022586_T017:7 Zm00001d022586_T025:5 Zm00001d022586_T022:7 Zm00001d022586_T030:7 Zm00001d022586_T019:7 Zm00001d022586_T024:7 Zm00001d022586_T015:7 Zm00001d022586_T035:7

			
						 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  
						
							TCAGCATTAGCTGTGATATTCTCAGTTTCTGAAATGAAGCTTCATTTTGCAGGATGTTGAGTTC
CTTTTTGCAATCTTGGTTCATCTACCAAAAGATGAGgagttcaactcatcatctagaggaggtc
cgcatgaaggcaatacgtttggtaattacaagtcctgcctgcttctttgaattgttcacttact
tggtttgc

									
								

					

						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
						
							GAGTTCAACTCATCATCTAGAGGAGGTCCGCATGAAGGCAATACGTTTGGTAATTACAAGTCCT
GCCTGCTTCTTTGAATTGTTCACTTACTTGGTTTGCTCACTTCGTTTGCTATCTGATAACAACA
GGTGGCAAATAAGTTATTTCCTATGACAAGCATTTCCAAAAAGATTGAAGATTTTGCAAATGAA
AAACTTAATTCAGTGCTGGAAATGACTCCATCTGGTGATTGTGTAACTACTGAAATGGCTACAC
CTGAAGCACACAAAGTTCGTCTCATGCTCTCACTTCTTTCAGATGGTCTTATGCTGATATTCTT
TTTCTGATTGGGTGTACTTGCATTTTCTGAAGGATATTGGTTTAGAAAACTTAACAGCTTCAGT
AACAGGCATGCAGACTCTGATGTCTCTATACTTTGCATTGTGCACCAAGGTCAGTAGTTACTGA
TCTGCATCTATTCTAGTCTAGTTATATGATATTTGCTAACAACAAAATAAATGTTTCTTACCAG
AAACATTCCCTTCTCAGACATGTATTTGCAATATATGGTAATCTACCGCAAGCTGCCAAGCAGG
TCCTTAAAGCCTATCATTCTTTCCATACAAGTACCTCAGATATTCTTTTTCTTGCTGTTCTATC
GGCAAACCTAGGTATATCTTATAACTGTATTTCTTCCAGGCAGTTCATCAACAAGTACCAATTC
TGATACGCACTATAGGCTCCTCCTCTGATCTTCTTGGAATCATCTCAGATCCACCAGCTGACTG
CCGGGACCTCCTCATGCAGGTGCAAGCTGTGATTTTGACTTTCGTTTGCTTTTTAAGACATGTT
CTCTTGGTCAAATCTACTGATAGATGCATTCAAAAGAGGTTTTATGTTTTATATAAGATTGTAT
TCTTGCATTTGATGCATATTTATGTGTAAATAATAATATCTTATGCGTCCAAGAGACTAAATGG
AAGGGTCAGAAGGTGAAAGAGGTGGACAATACCATCTTCAAGCTTTGCACAGAGATGCAAATAG
AATTGGAGTAGGAATTTTGACTGATAAGAGTCTCAAAACCGATGTGGTGGATGTGAGAAGTCAA
GGAGATAAGGTTATCTTAGTTAAGCTTGTTGTCGGTGATTTGGTCTTGAACGTAATTAGCGCGT
ATGCCTTCCCAGGTAGGCCACAATGGGAGTGCTAAGAGACCTGGGAAGCCTTAGATGGCATGGT
TAGACCTATACCTATTATTGTGAAGCCTTTCATAGAAGATCTCAATGGGCATGTAGGTACAACA
AGTGCAGATTTTGAGACGGTTCATGGAGGTTTTGGGTATGGTAGTAGGAATCAGAAGGGAGAGA
AAGTCTTGGATTTTGCAGTACTGTAGCTTTTAACCTGTTGATCGGCAACACTTTCTTTGGGAAG
AGAGAATCCTATTTAGTGACCTATAGCAGGCCAACACTCTAGTCAGATTGACTTTGTCCCCAGT
CCTCACAAGAAGAGAGGATGAATGAGCATGCTTGGATTGCAAGGTGATGCCTGGTAGCTTGGGG
AGTGTGTTGTCTCTCAACATAAGCTTATGGTGGCGGTCTTTCATTTTTAGGCGCGTGCTTGTAG
CGATAAACAAGCCAAGTTTGCGAGAACAAAGTAGTGGAAACTGAAAGGAGAGACATTAGAAGTC
TTCAAGGAAAGGGCCATCAAAGAGGGCACTTGGAAGGAAGAAAATAACATAAATAACATGTGGG
AGAAGATGGCAACCTGCATATGGAAGGTGGCCTTAGAGGTGTGTGGAGCATCCAAAGGGACTAG
AAGCGAAGTTAAAGGTATTTGGTGGTGGATCGAGAAAGTCCAAAGGGCTATTAAGGAGAAGAAA
GAATGCTATAGACGTTTGTACCATGATAGGAGTGTTGACAACGTAGAGAAGTACAAAGTAGTAA
CCAAGATCGCAAAGTGAGTTGTAAGTGTGGCAAAGGAATAGGGCGTACGAGTATCTTTGTGAAC
TAACTTTATCAACGTTTGAGTACAAAAGAATGAGAGAACATATATAGGATTGCTAGGGTCCGTG
AGAGGAAGACAAAGGACTTAAACCAATTGAAGTGCATTAAAGATGAAATGGAACACCTCTTGGG
GAAGGAGGATGAGATCAGAAATAGGTGGCAAGATTATTTTTATAAATTGTTCAATGGGAGAACA
GAGTTTTTTGCTATTTTAATATTAGATTATTTATAATAGTACTTTCAAGTGGAGTAGTTTGCTA
AAATAGTATTTACAGAGTTTTTTTTAACTCTTTTTATTTATCTTTTCAGTTTTTTCTTCCAGAA
TTAACCATTCTACCATGTAACAGAGGAATCCATGTACTCGGTTGTTTGCTCTCCTATCCTTTTT
GTTGTTGTCGCCCTGTTCTAAGATGTCTTCTTTTGGCAGTTCCCCCACGTCAAACACATCCCAG
TGGCAAGGAGTACATCCATGATTTTGGGGTGCATTTGAATAATTTTCGGAATGTGTTCAATCCC
TAGGTGTAGCCGCTAGCCATGGATGAACATGACGATTTTGTTAGCTGCTAGCCATGGATGAACA
GGACGCCATGATAACCACTGGAGCAAATTAAAAATAGAATTGTGGCGAGAGATGTGTGGGCCCT
ATTTGGTTTCACTTCTTCCCATCCCACCACACTTAGATTCTAGGAAACACAACTATTCTCGTGA
TTATTCGATTCTTGCTTATTAGTTCAATAGGTTTTGCGAGAAGCGAAAATAATCTAGGCGTTTG
GCGGGATTCTTGCTTATTTTCATCCATCAGTGGATTATAAGCGAAACGGAACATGGCCATGAGA
TGTGATTTCAGCACTACTATACATGAGGAAGATGTTAGTTTGGAAGGTCAACTAGTGCCCAGAA
TCGACGCCATTTGGTATTCAGGATCAATGCTATAGACAAACAGGGATATTGATGAAGATTTTAG
TTGTTAGCCATAGAATCAAAGCAGTGTGGGTGAAGAGGTGTTAAGCATCTAGCCTTCTATGTGA
CAATGGGGTACCGTAGACGCTAAAGGACAATTTTTATAGGACGACGATTGGATCTGTTATGTTG
TATGATGTAGAATGTTGGCCTACAAAAAGACGACATGGTTAGCAGATAACTGTTGTGGAAATAT
GTATATTGCATTGAATTTGTGACCATACAAGAAGGGATCGAATTTGGAACGATGATATATGTGA
TAGGCCTAGGGGTAGCACCAATTTAAGAAAAGCTTGTCCAACACCAAATGAGATGGGTTGGACA
TGTTCAACAAATACCTCTAGAAGCACTAGTGCGTAGTGGGATCTTAAGTCATGATAGCAATGAG
AAGCGAGTCAAGAGAAGGCTGAAGTTGATATTGGAAGTGACAGTAAAAAGAGACCGGAAATGAT
GGAATATACCCAAAGATTTAGCTTTGAATAGGAGTGCATAGAAAACAACTATCAATTTGCTTGA
ACCTTGACTTGTGATTTCTGTTTGGTTTAACTCTAGTCTAGTCTAACTTGCTTGAGACTAAAAG
CTTTGTTGTTGATGATGATAATGCATATTTATAACCCATGAAATTGCACCATGCAGGTTTTACA
AACCCTCACTGATGCTGCGGTTCCATCTAAAGATCTGATTTCTTCCATAAAGATCTTATATTCT
AAAACAAAGGTCGTTGCTTGCTTTAAGAAACCATTAAGTTATTACTGACTTTTTACAAGATCAG
CATTAGCTGTGATATTCTCAGTTTCTGAAATGAAGCTTCATTTTGCAGGATGTTGAGTTCCTTT
TTGCAATCTTGGTTCATCTACCAAAAGATGAG
						
					

			
		

Sequences
Splice junction sequence	TCAGCATTAGCTGTGATATTCTCAGTTTCTGAAATGAAGCTTCATTTTGCAGGATGTTGAGTTC CTTTTTGCAATCTTGGTTCATCTACCAAAAGATGAGgagttcaactcatcatctagaggaggtc cgcatgaaggcaatacgtttggtaattacaagtcctgcctgcttctttgaattgttcacttact tggtttgc
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	GAGTTCAACTCATCATCTAGAGGAGGTCCGCATGAAGGCAATACGTTTGGTAATTACAAGTCCT GCCTGCTTCTTTGAATTGTTCACTTACTTGGTTTGCTCACTTCGTTTGCTATCTGATAACAACA GGTGGCAAATAAGTTATTTCCTATGACAAGCATTTCCAAAAAGATTGAAGATTTTGCAAATGAA AAACTTAATTCAGTGCTGGAAATGACTCCATCTGGTGATTGTGTAACTACTGAAATGGCTACAC CTGAAGCACACAAAGTTCGTCTCATGCTCTCACTTCTTTCAGATGGTCTTATGCTGATATTCTT TTTCTGATTGGGTGTACTTGCATTTTCTGAAGGATATTGGTTTAGAAAACTTAACAGCTTCAGT AACAGGCATGCAGACTCTGATGTCTCTATACTTTGCATTGTGCACCAAGGTCAGTAGTTACTGA TCTGCATCTATTCTAGTCTAGTTATATGATATTTGCTAACAACAAAATAAATGTTTCTTACCAG AAACATTCCCTTCTCAGACATGTATTTGCAATATATGGTAATCTACCGCAAGCTGCCAAGCAGG TCCTTAAAGCCTATCATTCTTTCCATACAAGTACCTCAGATATTCTTTTTCTTGCTGTTCTATC GGCAAACCTAGGTATATCTTATAACTGTATTTCTTCCAGGCAGTTCATCAACAAGTACCAATTC TGATACGCACTATAGGCTCCTCCTCTGATCTTCTTGGAATCATCTCAGATCCACCAGCTGACTG CCGGGACCTCCTCATGCAGGTGCAAGCTGTGATTTTGACTTTCGTTTGCTTTTTAAGACATGTT CTCTTGGTCAAATCTACTGATAGATGCATTCAAAAGAGGTTTTATGTTTTATATAAGATTGTAT TCTTGCATTTGATGCATATTTATGTGTAAATAATAATATCTTATGCGTCCAAGAGACTAAATGG AAGGGTCAGAAGGTGAAAGAGGTGGACAATACCATCTTCAAGCTTTGCACAGAGATGCAAATAG AATTGGAGTAGGAATTTTGACTGATAAGAGTCTCAAAACCGATGTGGTGGATGTGAGAAGTCAA GGAGATAAGGTTATCTTAGTTAAGCTTGTTGTCGGTGATTTGGTCTTGAACGTAATTAGCGCGT ATGCCTTCCCAGGTAGGCCACAATGGGAGTGCTAAGAGACCTGGGAAGCCTTAGATGGCATGGT TAGACCTATACCTATTATTGTGAAGCCTTTCATAGAAGATCTCAATGGGCATGTAGGTACAACA AGTGCAGATTTTGAGACGGTTCATGGAGGTTTTGGGTATGGTAGTAGGAATCAGAAGGGAGAGA AAGTCTTGGATTTTGCAGTACTGTAGCTTTTAACCTGTTGATCGGCAACACTTTCTTTGGGAAG AGAGAATCCTATTTAGTGACCTATAGCAGGCCAACACTCTAGTCAGATTGACTTTGTCCCCAGT CCTCACAAGAAGAGAGGATGAATGAGCATGCTTGGATTGCAAGGTGATGCCTGGTAGCTTGGGG AGTGTGTTGTCTCTCAACATAAGCTTATGGTGGCGGTCTTTCATTTTTAGGCGCGTGCTTGTAG CGATAAACAAGCCAAGTTTGCGAGAACAAAGTAGTGGAAACTGAAAGGAGAGACATTAGAAGTC TTCAAGGAAAGGGCCATCAAAGAGGGCACTTGGAAGGAAGAAAATAACATAAATAACATGTGGG AGAAGATGGCAACCTGCATATGGAAGGTGGCCTTAGAGGTGTGTGGAGCATCCAAAGGGACTAG AAGCGAAGTTAAAGGTATTTGGTGGTGGATCGAGAAAGTCCAAAGGGCTATTAAGGAGAAGAAA GAATGCTATAGACGTTTGTACCATGATAGGAGTGTTGACAACGTAGAGAAGTACAAAGTAGTAA CCAAGATCGCAAAGTGAGTTGTAAGTGTGGCAAAGGAATAGGGCGTACGAGTATCTTTGTGAAC TAACTTTATCAACGTTTGAGTACAAAAGAATGAGAGAACATATATAGGATTGCTAGGGTCCGTG AGAGGAAGACAAAGGACTTAAACCAATTGAAGTGCATTAAAGATGAAATGGAACACCTCTTGGG GAAGGAGGATGAGATCAGAAATAGGTGGCAAGATTATTTTTATAAATTGTTCAATGGGAGAACA GAGTTTTTTGCTATTTTAATATTAGATTATTTATAATAGTACTTTCAAGTGGAGTAGTTTGCTA AAATAGTATTTACAGAGTTTTTTTTAACTCTTTTTATTTATCTTTTCAGTTTTTTCTTCCAGAA TTAACCATTCTACCATGTAACAGAGGAATCCATGTACTCGGTTGTTTGCTCTCCTATCCTTTTT GTTGTTGTCGCCCTGTTCTAAGATGTCTTCTTTTGGCAGTTCCCCCACGTCAAACACATCCCAG TGGCAAGGAGTACATCCATGATTTTGGGGTGCATTTGAATAATTTTCGGAATGTGTTCAATCCC TAGGTGTAGCCGCTAGCCATGGATGAACATGACGATTTTGTTAGCTGCTAGCCATGGATGAACA GGACGCCATGATAACCACTGGAGCAAATTAAAAATAGAATTGTGGCGAGAGATGTGTGGGCCCT ATTTGGTTTCACTTCTTCCCATCCCACCACACTTAGATTCTAGGAAACACAACTATTCTCGTGA TTATTCGATTCTTGCTTATTAGTTCAATAGGTTTTGCGAGAAGCGAAAATAATCTAGGCGTTTG GCGGGATTCTTGCTTATTTTCATCCATCAGTGGATTATAAGCGAAACGGAACATGGCCATGAGA TGTGATTTCAGCACTACTATACATGAGGAAGATGTTAGTTTGGAAGGTCAACTAGTGCCCAGAA TCGACGCCATTTGGTATTCAGGATCAATGCTATAGACAAACAGGGATATTGATGAAGATTTTAG TTGTTAGCCATAGAATCAAAGCAGTGTGGGTGAAGAGGTGTTAAGCATCTAGCCTTCTATGTGA CAATGGGGTACCGTAGACGCTAAAGGACAATTTTTATAGGACGACGATTGGATCTGTTATGTTG TATGATGTAGAATGTTGGCCTACAAAAAGACGACATGGTTAGCAGATAACTGTTGTGGAAATAT GTATATTGCATTGAATTTGTGACCATACAAGAAGGGATCGAATTTGGAACGATGATATATGTGA TAGGCCTAGGGGTAGCACCAATTTAAGAAAAGCTTGTCCAACACCAAATGAGATGGGTTGGACA TGTTCAACAAATACCTCTAGAAGCACTAGTGCGTAGTGGGATCTTAAGTCATGATAGCAATGAG AAGCGAGTCAAGAGAAGGCTGAAGTTGATATTGGAAGTGACAGTAAAAAGAGACCGGAAATGAT GGAATATACCCAAAGATTTAGCTTTGAATAGGAGTGCATAGAAAACAACTATCAATTTGCTTGA ACCTTGACTTGTGATTTCTGTTTGGTTTAACTCTAGTCTAGTCTAACTTGCTTGAGACTAAAAG CTTTGTTGTTGATGATGATAATGCATATTTATAACCCATGAAATTGCACCATGCAGGTTTTACA AACCCTCACTGATGCTGCGGTTCCATCTAAAGATCTGATTTCTTCCATAAAGATCTTATATTCT AAAACAAAGGTCGTTGCTTGCTTTAAGAAACCATTAAGTTATTACTGACTTTTTACAAGATCAG CATTAGCTGTGATATTCTCAGTTTCTGAAATGAAGCTTCATTTTGCAGGATGTTGAGTTCCTTT TTGCAATCTTGGTTCATCTACCAAAAGATGAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.029191356

Conservation Information
Conserved circRNAs	NA
PMCS	0.029191356

			
						 Functional Information
					
						Coding potential
						N
					
						Potential coding position
						
							NA
						
						Potential amino acid sequence
						
							NA
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	N
Potential coding position	NA
Potential amino acid sequence	NA
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Chen et al., 2017b

circRNA

Detail information of Zm00001d022586_circ_g.3

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