Plant Circular RNA Database

Detail information of Zm00001d043982_circ_g.2

			
				
						 General Information
					

				
						CircRNA Name
						Zm00001d043982_circ_g.2
					

						ID in PlantcircBase
						zma_circ_007845
					

						Alias
						Zm03circ00108
					

						Organism
						
							Zea mays						
					

						Position
						
							chr3: 215545150-215547467  JBrowse»						
					

						Reference genome
						
							AGPv4.38						
					

						Type  
						
							u-circRNA							
									
								

					

						Identification method
						CIRI2
					

						Parent gene
						
							Zm00001d043982						
					

						Parent gene annotation
						
							protein_coding
							
					

						Parent gene strand
						+
					

						Alternative splicing
						
							Zm00001d043982_circ_g.1 						
					

						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
						Zm00001d043982_T006:2
Zm00001d043982_T009:5
Zm00001d043982_T002:4
Zm00001d043982_T020:2
Zm00001d043982_T054:2
Zm00001d043982_T022:2
Zm00001d043982_T013:3
Zm00001d043982_T042:4
Zm00001d043982_T056:1
Zm00001d043982_T067:2
Zm00001d043982_T001:2
Zm00001d043982_T066:3
Zm00001d043982_T014:4
Zm00001d043982_T023:2
Zm00001d043982_T045:2
Zm00001d043982_T064:1
Zm00001d043982_T005:2
Zm00001d043982_T051:2
Zm00001d043982_T027:5
Zm00001d043982_T070:3
Zm00001d043982_T040:3
Zm00001d043982_T062:2
Zm00001d043982_T032:3
Zm00001d043982_T049:2
Zm00001d043982_T033:2
Zm00001d043982_T031:2
Zm00001d043982_T068:2
Zm00001d043982_T072:1
Zm00001d043982_T057:2
Zm00001d043982_T010:2
Zm00001d043982_T048:2
Zm00001d043982_T030:2
Zm00001d043982_T036:2
Zm00001d043982_T007:2
Zm00001d043982_T015:5
Zm00001d043982_T071:3
Zm00001d043982_T037:2
Zm00001d043982_T041:2
Zm00001d043982_T026:3
Zm00001d043982_T034:5
Zm00001d043982_T052:3
Zm00001d043982_T019:1
Zm00001d043982_T063:2
Zm00001d043982_T065:2
Zm00001d043982_T047:2
Zm00001d043982_T069:2
Zm00001d043982_T011:2
Zm00001d043982_T017:3
Zm00001d043982_T003:5
Zm00001d043982_T043:5

					

			
		

General Information
CircRNA Name	Zm00001d043982_circ_g.2
ID in PlantcircBase	zma_circ_007845
Alias	Zm03circ00108
Organism	Zea mays
Position	chr3: 215545150-215547467 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d043982
Parent gene annotation	protein_coding
Parent gene strand	+
Alternative splicing	Zm00001d043982_circ_g.1
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	Zm00001d043982_T006:2 Zm00001d043982_T009:5 Zm00001d043982_T002:4 Zm00001d043982_T020:2 Zm00001d043982_T054:2 Zm00001d043982_T022:2 Zm00001d043982_T013:3 Zm00001d043982_T042:4 Zm00001d043982_T056:1 Zm00001d043982_T067:2 Zm00001d043982_T001:2 Zm00001d043982_T066:3 Zm00001d043982_T014:4 Zm00001d043982_T023:2 Zm00001d043982_T045:2 Zm00001d043982_T064:1 Zm00001d043982_T005:2 Zm00001d043982_T051:2 Zm00001d043982_T027:5 Zm00001d043982_T070:3 Zm00001d043982_T040:3 Zm00001d043982_T062:2 Zm00001d043982_T032:3 Zm00001d043982_T049:2 Zm00001d043982_T033:2 Zm00001d043982_T031:2 Zm00001d043982_T068:2 Zm00001d043982_T072:1 Zm00001d043982_T057:2 Zm00001d043982_T010:2 Zm00001d043982_T048:2 Zm00001d043982_T030:2 Zm00001d043982_T036:2 Zm00001d043982_T007:2 Zm00001d043982_T015:5 Zm00001d043982_T071:3 Zm00001d043982_T037:2 Zm00001d043982_T041:2 Zm00001d043982_T026:3 Zm00001d043982_T034:5 Zm00001d043982_T052:3 Zm00001d043982_T019:1 Zm00001d043982_T063:2 Zm00001d043982_T065:2 Zm00001d043982_T047:2 Zm00001d043982_T069:2 Zm00001d043982_T011:2 Zm00001d043982_T017:3 Zm00001d043982_T003:5 Zm00001d043982_T043:5

			
						 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  
						
							GCATTAATCTATGTGATACATTTATTCAGGCGATTCCCATTTCTCAGTGATGTCGATGTCCTGT
ACTCCTGTATATTTGGATTCAACAATATGCCATTAGgagtgctgcatctgccttgcgtagtacg
gggagaaggaggaggttcggcagctgccgtgcacacacgtgtttcatctcaagtgcatatacag
gtggctca

									
								

					

						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
						
							GAGTGCTGCATCTGCCTTGCGTAGTACGGGGAGAAGGAGGAGGTTCGGCAGCTGCCGTGCACAC
ACGTGTTTCATCTCAAGTGCATATACAGGTGGCTCAGGATCATCTCCTCTTGCCCTCTCTGCAA
GCAAGAGCTCAAGTGAACTTTATATTCATTACACACATGACATTCTCGCTTATTCTTTGGATCA
AGGTGTTAGTATCCTAGACACAACAGATATTGTCAGTATTGATTCCTTCCTTCCTATTATTAAC
TATCCCTCTCTGTTTTCAAATCAAGTGATGGGATATACTTCTTCATTTTTCCTTTATGCTTTTA
CTACCCAGTTCCAGCTAACAAGGGAAATCAAGGAAGAATTGATCTTTATATTAGCAGGCGGATG
CAATCACTAATCAAAACCACGATGCAAGGTAACCTAAATGGATTTTAAATTTTATTTTGGATTG
TTAAATCTTTATTTCTGACTACTATTGTTTTATGTCGTGGATGCCCTCGTGAGGTTCTACGCCG
ACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGGCCAGCTTGAGTCGGCTCACCGGG
AGCAGCGCGAGATCCGCTACAACTAAATGATAGGAGGTATTTTCTAGAAATTACAACCCCACCT
CTGTCAGGCCTTCTGTTGAGTGAATTTGGTTTGCACACCCTCACCCTGCACGCTCTTACCGGAC
TACCGCTCCTAGCACCCACTCACACGAGATTGCACCCCGCTCGCCATGCCACCATAGATCCAGC
TAGGGCGACATCATTGTGGGCAATCCTGTGCGAGAGAATGTGAAATTGTTGTAGGATTGATAAT
GACCAGGGGTTTCTCCGCCCACATGCACCAGGTTTCGCTGCCATTTGCAGCGACTGTGTTCCAG
TTCGACCGTTTGGGGAAAAGGTGAGTCCTCCCATTTCATGTAGATGCATGGGTTGATAAACATT
TGGGAGAAATGTCCCCTCTTTAATTCGAAAAATAGTTGTGTATTTGTTCGACTTATCTGCGGCG
ATGTACCTTTGTACGCGTACAAACATCTATAGACAAAAACAAAATGACACTTCATGGATGTAGC
AAGAGCGGGCTACGAGAAACTAGCAGATCATGCCTAAAATTCAATTAGCATTAGGGTCAGACAA
AATACTACATTTTCTGGATTACAATAATGTATAGGTGCATGAAAAAAACTTGATTCCAATGTGT
GACAAAGTGTGAAGATGAAAGTGCACTTTCACGCTGTCATAACGCGGATTTGTTTTCCTTGCTC
ATGGAATGTGCATTTGTGTGTTTGCGTCTACTGTGCGGCTACAGGCAAGGAAACAGGATCTGTC
ACGGAAGGTATGTACACATTACAGTAAACGTTGTTCGTAGAACATGCACTTTGTGGAGTGGTCT
TTGAATGAGATGCGTTTAGAATTACCTTTTCATGCAGATCTCTTGTTCAGAACCTGGTTGCTTA
GTCCATTCTTGTTTTGGGTTGCTACTACAAAAAAGCGGCAATGCTTTATATGAATCGCCTCTTA
CTAATATCCAGGGTCAAATGGTGGTCCTTCAGTGACCAGACTAATATTTGAGCATTAATCTTAT
TTGTTTCACAGTCATTTCTTGTTTATCAATATGAATGCTATTTTTCTGCGAGTGGACTTGTTAA
CTAATAAGCTCATAGATATTTGAACAAAAAATAGTGTTTTGTTCTAAAACTGTCATAAAGAGTG
CATACATCATAGCTATGGTTTCAACTGTGATTTGATGTCCTATAATATTGAGTGTCCTATAGTG
TGTTGTTCTGAAACAGTCACAAAGAGGGCCTAAGAAGCTGATGGAATCCTCATTCACCGCCGCT
AAGGAGTTTGAGCGGGATCGGAGAGGAGACGTCAGTTCTTCCTCCTCTGCTCAATGCGGCCATT
CGCCCTGTCCCCCAACCCTGAACTCCACACTGCCACTCCGTGCTCATTTTTTCTGAAGGGGAAA
TATTCATCTCCTTGTTGTTTTGTACCATGGATACTTTAGCATCATTCTCATACTACTAGGAGTG
TAGGTAAGGAGTCCACACACGAGTTTGCAAACACCATTAAGCCTATTTTGCTTGATTAGTGCCC
TGCAACACTTCATATGTTCAAGACAAAATCCATACCCATGTCTATTGTTGTATGATATTATTTG
CATTGACCGTTGCTGCTCTTCTTGATTGCAGTCACTAACATTGCATTAATCTATGTGATACATT
TATTCAGGCGATTCCCATTTCTCAGTGATGTCGATGTCCTGTACTCCTGTATATTTGGATTCAA
CAATATGCCATTAG
						
					

			
		

Sequences
Splice junction sequence	GCATTAATCTATGTGATACATTTATTCAGGCGATTCCCATTTCTCAGTGATGTCGATGTCCTGT ACTCCTGTATATTTGGATTCAACAATATGCCATTAGgagtgctgcatctgccttgcgtagtacg gggagaaggaggaggttcggcagctgccgtgcacacacgtgtttcatctcaagtgcatatacag gtggctca
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	GAGTGCTGCATCTGCCTTGCGTAGTACGGGGAGAAGGAGGAGGTTCGGCAGCTGCCGTGCACAC ACGTGTTTCATCTCAAGTGCATATACAGGTGGCTCAGGATCATCTCCTCTTGCCCTCTCTGCAA GCAAGAGCTCAAGTGAACTTTATATTCATTACACACATGACATTCTCGCTTATTCTTTGGATCA AGGTGTTAGTATCCTAGACACAACAGATATTGTCAGTATTGATTCCTTCCTTCCTATTATTAAC TATCCCTCTCTGTTTTCAAATCAAGTGATGGGATATACTTCTTCATTTTTCCTTTATGCTTTTA CTACCCAGTTCCAGCTAACAAGGGAAATCAAGGAAGAATTGATCTTTATATTAGCAGGCGGATG CAATCACTAATCAAAACCACGATGCAAGGTAACCTAAATGGATTTTAAATTTTATTTTGGATTG TTAAATCTTTATTTCTGACTACTATTGTTTTATGTCGTGGATGCCCTCGTGAGGTTCTACGCCG ACGCCTTCAGGAGGGATTCACAGAGGCCATGGTGAGGATGGCCAGCTTGAGTCGGCTCACCGGG AGCAGCGCGAGATCCGCTACAACTAAATGATAGGAGGTATTTTCTAGAAATTACAACCCCACCT CTGTCAGGCCTTCTGTTGAGTGAATTTGGTTTGCACACCCTCACCCTGCACGCTCTTACCGGAC TACCGCTCCTAGCACCCACTCACACGAGATTGCACCCCGCTCGCCATGCCACCATAGATCCAGC TAGGGCGACATCATTGTGGGCAATCCTGTGCGAGAGAATGTGAAATTGTTGTAGGATTGATAAT GACCAGGGGTTTCTCCGCCCACATGCACCAGGTTTCGCTGCCATTTGCAGCGACTGTGTTCCAG TTCGACCGTTTGGGGAAAAGGTGAGTCCTCCCATTTCATGTAGATGCATGGGTTGATAAACATT TGGGAGAAATGTCCCCTCTTTAATTCGAAAAATAGTTGTGTATTTGTTCGACTTATCTGCGGCG ATGTACCTTTGTACGCGTACAAACATCTATAGACAAAAACAAAATGACACTTCATGGATGTAGC AAGAGCGGGCTACGAGAAACTAGCAGATCATGCCTAAAATTCAATTAGCATTAGGGTCAGACAA AATACTACATTTTCTGGATTACAATAATGTATAGGTGCATGAAAAAAACTTGATTCCAATGTGT GACAAAGTGTGAAGATGAAAGTGCACTTTCACGCTGTCATAACGCGGATTTGTTTTCCTTGCTC ATGGAATGTGCATTTGTGTGTTTGCGTCTACTGTGCGGCTACAGGCAAGGAAACAGGATCTGTC ACGGAAGGTATGTACACATTACAGTAAACGTTGTTCGTAGAACATGCACTTTGTGGAGTGGTCT TTGAATGAGATGCGTTTAGAATTACCTTTTCATGCAGATCTCTTGTTCAGAACCTGGTTGCTTA GTCCATTCTTGTTTTGGGTTGCTACTACAAAAAAGCGGCAATGCTTTATATGAATCGCCTCTTA CTAATATCCAGGGTCAAATGGTGGTCCTTCAGTGACCAGACTAATATTTGAGCATTAATCTTAT TTGTTTCACAGTCATTTCTTGTTTATCAATATGAATGCTATTTTTCTGCGAGTGGACTTGTTAA CTAATAAGCTCATAGATATTTGAACAAAAAATAGTGTTTTGTTCTAAAACTGTCATAAAGAGTG CATACATCATAGCTATGGTTTCAACTGTGATTTGATGTCCTATAATATTGAGTGTCCTATAGTG TGTTGTTCTGAAACAGTCACAAAGAGGGCCTAAGAAGCTGATGGAATCCTCATTCACCGCCGCT AAGGAGTTTGAGCGGGATCGGAGAGGAGACGTCAGTTCTTCCTCCTCTGCTCAATGCGGCCATT CGCCCTGTCCCCCAACCCTGAACTCCACACTGCCACTCCGTGCTCATTTTTTCTGAAGGGGAAA TATTCATCTCCTTGTTGTTTTGTACCATGGATACTTTAGCATCATTCTCATACTACTAGGAGTG TAGGTAAGGAGTCCACACACGAGTTTGCAAACACCATTAAGCCTATTTTGCTTGATTAGTGCCC TGCAACACTTCATATGTTCAAGACAAAATCCATACCCATGTCTATTGTTGTATGATATTATTTG CATTGACCGTTGCTGCTCTTCTTGATTGCAGTCACTAACATTGCATTAATCTATGTGATACATT TATTCAGGCGATTCCCATTTCTCAGTGATGTCGATGTCCTGTACTCCTGTATATTTGGATTCAA CAATATGCCATTAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.094192378

Conservation Information
Conserved circRNAs	NA
PMCS	0.094192378

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							215545532-215545355(+)
215545226-215547452(-)
						
						Potential amino acid sequence
						
							MQSLIKTTMQGLIMTRGFSAHMHQVSLPFAATVFQFDRLGKRQGNRICHGRRFPFLSDVDVLYS
CIFGFNNMPLGVLHLPCVVRGEGGGSAAAVHTRVSSQVHIQVAQDHLLLPSLQARAQVNFIFIT
HMTFSLILWIKVLVS*(+)
MKHVCARQLPNLLLLPVLRKADAALLMAYC*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	215545532-215545355(+) 215545226-215547452(-)
Potential amino acid sequence	MQSLIKTTMQGLIMTRGFSAHMHQVSLPFAATVFQFDRLGKRQGNRICHGRRFPFLSDVDVLYS CIFGFNNMPLGVLHLPCVVRGEGGGSAAAVHTRVSSQVHIQVAQDHLLLPSLQARAQVNFIFIT HMTFSLILWIKVLVS(+) MKHVCARQLPNLLLLPVLRKADAALLMAYC(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d043982_circ_g.2

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