Plant Circular RNA Database

Detail information of Zm00001d045109_circ_g.5

			
						 General Information
					
						CircRNA Name
						Zm00001d045109_circ_g.5
					
						ID in PlantcircBase
						zma_circ_002900
					
						Alias
						circ75
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 13099685-13102941  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						KNIFE
					
						Parent gene
						
							Zm00001d045109						
					
						Parent gene annotation
						
							Putative homeodomain-like transcription factor superfamily prote
in  
							
						Parent gene strand
						+
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						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
						Zm00001d045109_T010:5
Zm00001d045109_T016:5
Zm00001d045109_T025:5
Zm00001d045109_T036:1
Zm00001d045109_T023:5
Zm00001d045109_T001:3
Zm00001d045109_T028:5
Zm00001d045109_T012:5
Zm00001d045109_T004:5
Zm00001d045109_T018:3
Zm00001d045109_T035:3
Zm00001d045109_T031:5
Zm00001d045109_T008:5
Zm00001d045109_T007:6
Zm00001d045109_T033:5
Zm00001d045109_T015:4
Zm00001d045109_T026:5
Zm00001d045109_T024:5
Zm00001d045109_T002:5
Zm00001d045109_T005:5
Zm00001d045109_T017:5
Zm00001d045109_T032:5
Zm00001d045109_T003:4
Zm00001d045109_T034:5
Zm00001d045109_T022:3

General Information
CircRNA Name	Zm00001d045109_circ_g.5
ID in PlantcircBase	zma_circ_002900
Alias	circ75
Organism	Zea mays
Position	chr9: 13099685-13102941 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	KNIFE
Parent gene	Zm00001d045109
Parent gene annotation	Putative homeodomain-like transcription factor superfamily prote in
Parent gene strand	+
Alternative splicing	NA
Support reads	NA
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	Zm00001d045109_T010:5 Zm00001d045109_T016:5 Zm00001d045109_T025:5 Zm00001d045109_T036:1 Zm00001d045109_T023:5 Zm00001d045109_T001:3 Zm00001d045109_T028:5 Zm00001d045109_T012:5 Zm00001d045109_T004:5 Zm00001d045109_T018:3 Zm00001d045109_T035:3 Zm00001d045109_T031:5 Zm00001d045109_T008:5 Zm00001d045109_T007:6 Zm00001d045109_T033:5 Zm00001d045109_T015:4 Zm00001d045109_T026:5 Zm00001d045109_T024:5 Zm00001d045109_T002:5 Zm00001d045109_T005:5 Zm00001d045109_T017:5 Zm00001d045109_T032:5 Zm00001d045109_T003:4 Zm00001d045109_T034:5 Zm00001d045109_T022:3

			
						 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  
						
							ATCCTCCATATGCATGAATGCAGATGGCGTTCCAAAGGAAATGATGCGTGTTGATGATGTACTA
GTCAGGATAGCAAACATATCCCTTATTGAGGAGAAGgatggctgccgctgatgaagatgacatt
catgatttaagttccgaagatgaggattactcattggaggatgacatttcagataatgacacaa
gtttgcaa

									
								

					

						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
						
							GATGGCTGCCGCTGATGAAGATGACATTCATGATTTAAGTTCCGAAGATGAGGATTACTCATTG
GAGGATGACATTTCAGATAATGACACAAGTTTGCAAGGAAATATTTCTGGGAAGAGGGGCCAAT
ATTCTAAGAGAAAATCACGTAAGAGAGCAATGTAAATACATCGCACTATGGACTATTGTTACAT
GATGAATATTCTGTACTTATATACTTTGCAAATACATTGTCATTAGGTAATGTTGATTCTATTC
CATTGATGGAGGGCGAAGGACGTACCTTGAGAGTTCTTGGATTCAACCATGCTCAACGAGCAAT
GTTCCTACAGACACTCAATAGGTTAGTTACTGATATGCCTCTTGAACCTGTCTGGTCAGCGAGT
GAGTACCTTGAACCTAAAGTTTATGTGCAGATGTTGAGATGCTATTACATTGCGTGATAAAGCA
GGCACACAGAAATTTCTGTTTCATTTGTATCTCTTGGCCATGTGTACATTTTTAATCATGGAAT
CCTTTTTTTTTTACAATTGTTGGTTAGTGTTTACATTTTTATCACTCGTTTCTAATAGTTGTGT
GCTCTGACCTGTATCTTTGTCACCAAATTGTAATTTCTGGTCCAATTTTAAGCATAAAATATTT
GCACTGAGGTCATTGGCTATTCCCTAGTTGTACTATCAGACCAACATGAACGTGACCCCATGCA
ACATTGTAGATTCGGTTTTCAGAATTATGACTGGAAAGAGTATCTTCCTCGTCTTAAAGGAAAA
AGTGTCGAGGAAATCCAGAGGTATGTGAAATGTGCTCTCCATGTTTTATGACCCCAATTATTTT
GAGTTGTAGACCAAATAGTGAAGAATCTGGGGCATAGTTTCGTAAGTTAGATGGATATGATGCA
CAACATTTTACATTTTATTGATTTTCTCTTAGGCGAAGGGCGGGCCTGGTGCAGCGGTAGAGCC
TACCGTCTGTAACCGGAAGGTCTTGGGTTCGAGCCCCAACCTCTGCATATTATGCGGGTAAGGC
TTGGCGCTTAAAGATACCCTTCCCCAGACCCCGCACAGTGCGAGAAGCCTATGGCACTGGGTTC
GCCCTTTTATTGATTTTCTCTTAGGCCCCGTTTGTTTCCCTTCATTTTAAGGAATTGGAATCTA
ACTGATGGAGTAAGCTATTTTTTTTATAATGTAATATTCCATAACTTTCCAAAGTTTATGTATA
AGCCAATCTCAAATTCATGGGGTGAGAGATGGAAATTGATTCTATAGATTTACATGCTACTTTT
CAAATTTACAACTTATAGCACACTCTTCTACTTGCTTCTCTATATGATAAATGTAGTGTATAAC
TATCTCTCTTATATGATTTAGGATAATATACAAATACATTACATAGATAAATATATTAACTTAA
TAGTTTTATCTTAAATTATAATTATTATAATGGAATTCAATTCCAACGAAACAAACGGGGCCTT
AGGTATATAGACAATGAATTCAAGTTTGTGCTTCGACGAAGAATTGATGAGATGGGTAACTGGG
CATTCCTGGCTTCTGATAGTACACATATTTAGGCAAAGTCGACTGCTGGTAGTAGTGAAAGTGT
ACACACAAATATGCTTGGTTGGACTCTTGCTTTGTTTATTATGTTGCAAATTTATATAACTATT
GCACCCTTGCCAACAAGGAAAGATGTGGCATCATCACATATGAAGCCAAATTAAGCAGGCAGTC
ACCAAAGTCAGACTATATCTGCAGTGCTAGACTGTTAGTAGCAAATTGAGCCAACAGTCACCAA
AGCTAGACTACCTCTGAAGTGCGAATAGCAGGCGGCCATAACCTAACCCTATTAAGTTGTATGC
ACCAACCAGTTCAACCCAAAAGCTTAAGCTGATGGAGAGAGGTGGCAATTCACTTGTATTCTAA
CATTCTCCCTCACATCGAGGCTCTCTTAGACCGTCTCCAGCAGTTCACCCATACGGTTATCAAA
ACACTGGTTTTCACTGTAGACTATACTGTTTGCATATGGGGATGTGGATGAGTAAGCTGCTGGA
GATAGCCTTAGGTCTTAGACGTGGAATAAGAACGGACAACAATTATTTTATTTAATTGCGCTAA
CCAGGATTCGAACTCAAGATATCTGGCTTTGATATCATATTAAGTCGCATATACCAGCCAGTTC
AACCCAAAAACTTAAGCTTATAGAGAGGTGGACAATTCACTTGTATTCTAACAAACCCCAGTGC
TAGTAGCAAAATGAGCCAACAGTTACCAAAGCTTGCAGCTGAAGGGCTAGTTTGGCAGCGCTTT
GTGGACAGAGCGCTGCGCCGCTGCCAAACACTGTTGCTCCATCTCGGAAGTGCTCGCCCTATGC
TCCAGTCGATTTGCATTATGGGTGGGGAGCGGAAAAAATCCGCTCTGTCTGCAGCATGCTCCTC
TCTCCACTTCCCGCTCTGCTGCCTGCTCCCCTCTCCACCCACGCCGCTATCCACCGCATCTCTG
CCTGCACAGCCCCTCTCTGGCTCATTAACGGTGGCGTGGACCACGAGCACTGGGCAGATCCGTG
GTGGTGATAAAGAGGGCAGGAGGGAGGCCAGACCCTCCGTGGCGAGGAGTGCTGCACTTGGAGG
ATGTGGGCCCTGGCGAGCTGGAGCCGAAGCTGATGGAGAAGCACTACCAAACACTGGTATCGGC
AGGTGGGGAGCAACCTGAGCGGGAGCCTAGGGGAGCTGGAGCCGCTGGGAGCTTCGTGACAGTA
GTACCAAACATGATCTAAGTAAACGTCATATGAACATGGAACAGGCATCAAGATGCTGTCCTTC
ATATAGCTCTATCATTACTTTTTCCTTGTAGAGCCCATAACCACAAGAATGTTGTACACCCACT
TATGTATAGGGTAGGCTTGTATAACACCCATTTAAGTCAAGTACACCTCTTATATTCCCACCAA
ACAACCCAGTTTTAGGCAATTATTTTTGTGGAGATCCTCAAAGTGATTCATAGCAATAACCTTT
GTGCAATTTATTTTTGTATATATAATATGTTCTTGCAGATATGCTGAACTTGTCATGGCACATC
TTGTTGAAGAAATTAATGATTCTGACTATTTTTCAGGTAATTGAGCTTAGTAATGGCTACTATC
ATTTTTACGCATCCAATTCTTATCCTCCATATGCATGAATGCAGATGGCGTTCCAAAGGAAATG
ATGCGTGTTGATGATGTACTAGTCAGGATAGCAAACATATCCCTTATTGAGGAGAAG
						
					

			
		

Sequences
Splice junction sequence	ATCCTCCATATGCATGAATGCAGATGGCGTTCCAAAGGAAATGATGCGTGTTGATGATGTACTA GTCAGGATAGCAAACATATCCCTTATTGAGGAGAAGgatggctgccgctgatgaagatgacatt catgatttaagttccgaagatgaggattactcattggaggatgacatttcagataatgacacaa gtttgcaa
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	GATGGCTGCCGCTGATGAAGATGACATTCATGATTTAAGTTCCGAAGATGAGGATTACTCATTG GAGGATGACATTTCAGATAATGACACAAGTTTGCAAGGAAATATTTCTGGGAAGAGGGGCCAAT ATTCTAAGAGAAAATCACGTAAGAGAGCAATGTAAATACATCGCACTATGGACTATTGTTACAT GATGAATATTCTGTACTTATATACTTTGCAAATACATTGTCATTAGGTAATGTTGATTCTATTC CATTGATGGAGGGCGAAGGACGTACCTTGAGAGTTCTTGGATTCAACCATGCTCAACGAGCAAT GTTCCTACAGACACTCAATAGGTTAGTTACTGATATGCCTCTTGAACCTGTCTGGTCAGCGAGT GAGTACCTTGAACCTAAAGTTTATGTGCAGATGTTGAGATGCTATTACATTGCGTGATAAAGCA GGCACACAGAAATTTCTGTTTCATTTGTATCTCTTGGCCATGTGTACATTTTTAATCATGGAAT CCTTTTTTTTTTACAATTGTTGGTTAGTGTTTACATTTTTATCACTCGTTTCTAATAGTTGTGT GCTCTGACCTGTATCTTTGTCACCAAATTGTAATTTCTGGTCCAATTTTAAGCATAAAATATTT GCACTGAGGTCATTGGCTATTCCCTAGTTGTACTATCAGACCAACATGAACGTGACCCCATGCA ACATTGTAGATTCGGTTTTCAGAATTATGACTGGAAAGAGTATCTTCCTCGTCTTAAAGGAAAA AGTGTCGAGGAAATCCAGAGGTATGTGAAATGTGCTCTCCATGTTTTATGACCCCAATTATTTT GAGTTGTAGACCAAATAGTGAAGAATCTGGGGCATAGTTTCGTAAGTTAGATGGATATGATGCA CAACATTTTACATTTTATTGATTTTCTCTTAGGCGAAGGGCGGGCCTGGTGCAGCGGTAGAGCC TACCGTCTGTAACCGGAAGGTCTTGGGTTCGAGCCCCAACCTCTGCATATTATGCGGGTAAGGC TTGGCGCTTAAAGATACCCTTCCCCAGACCCCGCACAGTGCGAGAAGCCTATGGCACTGGGTTC GCCCTTTTATTGATTTTCTCTTAGGCCCCGTTTGTTTCCCTTCATTTTAAGGAATTGGAATCTA ACTGATGGAGTAAGCTATTTTTTTTATAATGTAATATTCCATAACTTTCCAAAGTTTATGTATA AGCCAATCTCAAATTCATGGGGTGAGAGATGGAAATTGATTCTATAGATTTACATGCTACTTTT CAAATTTACAACTTATAGCACACTCTTCTACTTGCTTCTCTATATGATAAATGTAGTGTATAAC TATCTCTCTTATATGATTTAGGATAATATACAAATACATTACATAGATAAATATATTAACTTAA TAGTTTTATCTTAAATTATAATTATTATAATGGAATTCAATTCCAACGAAACAAACGGGGCCTT AGGTATATAGACAATGAATTCAAGTTTGTGCTTCGACGAAGAATTGATGAGATGGGTAACTGGG CATTCCTGGCTTCTGATAGTACACATATTTAGGCAAAGTCGACTGCTGGTAGTAGTGAAAGTGT ACACACAAATATGCTTGGTTGGACTCTTGCTTTGTTTATTATGTTGCAAATTTATATAACTATT GCACCCTTGCCAACAAGGAAAGATGTGGCATCATCACATATGAAGCCAAATTAAGCAGGCAGTC ACCAAAGTCAGACTATATCTGCAGTGCTAGACTGTTAGTAGCAAATTGAGCCAACAGTCACCAA AGCTAGACTACCTCTGAAGTGCGAATAGCAGGCGGCCATAACCTAACCCTATTAAGTTGTATGC ACCAACCAGTTCAACCCAAAAGCTTAAGCTGATGGAGAGAGGTGGCAATTCACTTGTATTCTAA CATTCTCCCTCACATCGAGGCTCTCTTAGACCGTCTCCAGCAGTTCACCCATACGGTTATCAAA ACACTGGTTTTCACTGTAGACTATACTGTTTGCATATGGGGATGTGGATGAGTAAGCTGCTGGA GATAGCCTTAGGTCTTAGACGTGGAATAAGAACGGACAACAATTATTTTATTTAATTGCGCTAA CCAGGATTCGAACTCAAGATATCTGGCTTTGATATCATATTAAGTCGCATATACCAGCCAGTTC AACCCAAAAACTTAAGCTTATAGAGAGGTGGACAATTCACTTGTATTCTAACAAACCCCAGTGC TAGTAGCAAAATGAGCCAACAGTTACCAAAGCTTGCAGCTGAAGGGCTAGTTTGGCAGCGCTTT GTGGACAGAGCGCTGCGCCGCTGCCAAACACTGTTGCTCCATCTCGGAAGTGCTCGCCCTATGC TCCAGTCGATTTGCATTATGGGTGGGGAGCGGAAAAAATCCGCTCTGTCTGCAGCATGCTCCTC TCTCCACTTCCCGCTCTGCTGCCTGCTCCCCTCTCCACCCACGCCGCTATCCACCGCATCTCTG CCTGCACAGCCCCTCTCTGGCTCATTAACGGTGGCGTGGACCACGAGCACTGGGCAGATCCGTG GTGGTGATAAAGAGGGCAGGAGGGAGGCCAGACCCTCCGTGGCGAGGAGTGCTGCACTTGGAGG ATGTGGGCCCTGGCGAGCTGGAGCCGAAGCTGATGGAGAAGCACTACCAAACACTGGTATCGGC AGGTGGGGAGCAACCTGAGCGGGAGCCTAGGGGAGCTGGAGCCGCTGGGAGCTTCGTGACAGTA GTACCAAACATGATCTAAGTAAACGTCATATGAACATGGAACAGGCATCAAGATGCTGTCCTTC ATATAGCTCTATCATTACTTTTTCCTTGTAGAGCCCATAACCACAAGAATGTTGTACACCCACT TATGTATAGGGTAGGCTTGTATAACACCCATTTAAGTCAAGTACACCTCTTATATTCCCACCAA ACAACCCAGTTTTAGGCAATTATTTTTGTGGAGATCCTCAAAGTGATTCATAGCAATAACCTTT GTGCAATTTATTTTTGTATATATAATATGTTCTTGCAGATATGCTGAACTTGTCATGGCACATC TTGTTGAAGAAATTAATGATTCTGACTATTTTTCAGGTAATTGAGCTTAGTAATGGCTACTATC ATTTTTACGCATCCAATTCTTATCCTCCATATGCATGAATGCAGATGGCGTTCCAAAGGAAATG ATGCGTGTTGATGATGTACTAGTCAGGATAGCAAACATATCCCTTATTGAGGAGAAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.021031522

Conservation Information
Conserved circRNAs	NA
PMCS	0.021031522

			
						 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 Zm00001d045109_circ_g.5

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