Plant Circular RNA Database

Detail information of Zm00001d012974_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d012974_circ_g.2
					
						ID in PlantcircBase
						zma_circ_001867
					
						Alias
						circ857
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 2618101-2620489  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI
					
						Parent gene
						
							Zm00001d012974						
					
						Parent gene annotation
						
							Transducin/WD40 repeat-like superfamily protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d012974_circ_g.3 						
					
						Support reads
						10
					
						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-TA							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
						Zm00001d012974_T038:5
Zm00001d012974_T051:5
Zm00001d012974_T027:2
Zm00001d012974_T058:5
Zm00001d012974_T054:5
Zm00001d012974_T017:5
Zm00001d012974_T018:5
Zm00001d012974_T024:5
Zm00001d012974_T063:5
Zm00001d012974_T061:5
Zm00001d012974_T053:5
Zm00001d012974_T057:3
Zm00001d012974_T006:5
Zm00001d012974_T041:4
Zm00001d012974_T013:4
Zm00001d012974_T046:5
Zm00001d012974_T062:5
Zm00001d012974_T025:2
Zm00001d012974_T042:5
Zm00001d012974_T023:5
Zm00001d012974_T014:4
Zm00001d012974_T055:5
Zm00001d012974_T021:5
Zm00001d012974_T039:5
Zm00001d012974_T010:5
Zm00001d012974_T048:4
Zm00001d012974_T003:5
Zm00001d012974_T030:5
Zm00001d012974_T016:5
Zm00001d012974_T067:4
Zm00001d012974_T032:5
Zm00001d012974_T005:4
Zm00001d012974_T052:5
Zm00001d012974_T019:4
Zm00001d012974_T001:1
Zm00001d012974_T012:5
Zm00001d012974_T002:5
Zm00001d012974_T060:5
Zm00001d012974_T009:5
Zm00001d012974_T034:5
Zm00001d012974_T070:3

General Information
CircRNA Name	Zm00001d012974_circ_g.2
ID in PlantcircBase	zma_circ_001867
Alias	circ857
Organism	Zea mays
Position	chr5: 2618101-2620489 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI
Parent gene	Zm00001d012974
Parent gene annotation	Transducin/WD40 repeat-like superfamily protein
Parent gene strand	+
Alternative splicing	Zm00001d012974_circ_g.3
Support reads	10
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-TA 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	Zm00001d012974_T038:5 Zm00001d012974_T051:5 Zm00001d012974_T027:2 Zm00001d012974_T058:5 Zm00001d012974_T054:5 Zm00001d012974_T017:5 Zm00001d012974_T018:5 Zm00001d012974_T024:5 Zm00001d012974_T063:5 Zm00001d012974_T061:5 Zm00001d012974_T053:5 Zm00001d012974_T057:3 Zm00001d012974_T006:5 Zm00001d012974_T041:4 Zm00001d012974_T013:4 Zm00001d012974_T046:5 Zm00001d012974_T062:5 Zm00001d012974_T025:2 Zm00001d012974_T042:5 Zm00001d012974_T023:5 Zm00001d012974_T014:4 Zm00001d012974_T055:5 Zm00001d012974_T021:5 Zm00001d012974_T039:5 Zm00001d012974_T010:5 Zm00001d012974_T048:4 Zm00001d012974_T003:5 Zm00001d012974_T030:5 Zm00001d012974_T016:5 Zm00001d012974_T067:4 Zm00001d012974_T032:5 Zm00001d012974_T005:4 Zm00001d012974_T052:5 Zm00001d012974_T019:4 Zm00001d012974_T001:1 Zm00001d012974_T012:5 Zm00001d012974_T002:5 Zm00001d012974_T060:5 Zm00001d012974_T009:5 Zm00001d012974_T034:5 Zm00001d012974_T070:3

			
						 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  
						
							TATCTTCGGAAAAATTGAAAAAGAAAAACGTCTAACATTACCATAGGTGACAGGTTTACGATGG
GCTATCGATGGCAATTGTTTATTCAGCTGCAGTCAGgagttggtggttttatttatgacggcaa
tgaagttgatttagatgcttcaaaggatgcagacttctcgatggaaccatgctcaaaatcaaag
aagaaatc

									
								

					

						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
						
							GAGTTGGTGGTTTTATTTATGACGGCAATGAAGTTGATTTAGATGCTTCAAAGGATGCAGACTT
CTCGATGGAACCATGCTCAAAATCAAAGAAGAAATCTTTGAAAAAGGTAGAGATTTTACACATC
TATGCTGAAGTCTTGGTTTATTCTTTTACTTTGTAATAAAAGGGAAACCTAGTTGATTCTTAAC
AAAAAAAAGAACCAATTATTCCCTCCGCTTTTAAATGGTACTTTGGACTTGGTACATCCATTTG
AATTTTGGAGTATTCATCTTTCCTTCAAATATTTATGCAAATAGACAAACATACAAGGCTTGCT
TAAAGTACTTTAGATGACATATCTAGCGACACTCTTTTAAGTTTCGTTAGCTACTAAGTAATTG
AATAAATATTGCTGGTCAATGTACATGACTGTTTTGTGTTTTCTATTTAACATTACTGTGTTTG
TGATTCCAGACTGTAAAACCCAGGGATGAAGTGGTTGCTGTAAATGGACGAAACAGCACAGGGA
ATGTTAAAGCATCATTGTCCTCCAATGAACAAAACAAATCTCTTCCTCTTATCACGGCAAAACA
GTATGCCTGTCGTGCTGCACATTTGTCTTCCCTTGTAGTTTCATGGTCTCCAGTTGTGTCATTA
AGTGATAGAACTTCTTGTTTATTGAGGCATTGGTGCATTCTTGCTGTTGGCTCTAAATCTGGAA
ATATTTCTTTTTGGAAACTATATAAGCCAGAATATTACACAATAGATGCTGGTGTGGTTACCAG
TGATCCGATGCTCATCGGGGTTTTGCATGCTCATGAATCATGGGTCAATGCCATAACTTGGCAA
GTTCTTTCTGCGGGCTCTTCAAAATCCTCGTTGCTTTTAGCTACTGGATGCTCAGATGGAAGGT
AACCATTTTATGCATATTGTCTGTAAATGGTGATGTGCTTTTTTCAGCTGCACTATGTATTGTT
TCTTGTTTGCTTACGTGAATTTTGTGAGCTCTTCTTGACTCATGACATGGCAAAAGTGATATAT
GGGGATAATCATAAGCATAGCTTTGCTTCTATGTTTTCTGGAATAAGGTCCAAGTTTGTCCATA
AGCAGCAGTGAGCAGAATGACCTGTATAGGCATGCAATGAGCCTGTCATACCTCTGCCTTAATA
AATAAAAAAGAAAGCACACCAGATTGTTGGGATTAGGGTTACGGAGGTCATACGAGTGGTAGGT
TTGGGGTCTAGGGCCACGACCCCGGCGCTTGGGCGTCGTCGGGCTGTTGGTGGAGAAGGCGAGG
TACTGTCCACGAGATGAACAGTAGCCGCGATGAACACTAATGGGATATGGGAAGCACGGGCAAG
ATAATTGCCTGCTTGCTCCTTTCTTTAACCAAAGGGGTACAATATATAGGCTGTCATAGCAGCC
CCTAACGAACTAACCAACTCTATCTACGAGTTTCAAACTAATGCTTATGCATCTGAACAAACTA
ATTGATACTTATGCATCTAAACAAACTAATTGATACTTATGCATCTAAACAAACTAAGAACTAA
CTGATGCTTATCCATCTAAACAAACTACCTGATTTTTTAGGGCTTTTGGGCGCTGCCAGTCATA
ACACCCCCCCCCCCCAAAAAAAAATTATAATCACGCAACACATTCTCTGCACTAGATATCTGGG
TGGTGGTGAAAATACTTTACCCATGTGCCTTAAAAAGATTCTCATTGGTCTTTTTATATTTTAT
AAACTTTGGTTATTCCTATGGTTATTTTTTGCCTTTCAATGGTTATTATTAGTTTTCTGCAGAC
ACTGCATATCACATGTTGAAGATTTGGTTTGTATTTTCAGTGTTAAGATATGGTTAGGGAATAT
TGAAGGGTTAAATCAATGTGCAATTGGAGAAGAAGTGCCATTTGTGTTAGTTGCTGAGGTATGT
AATATATACCTAGTGGAGTTCACACTTTACATGTACAATTTATGGTTTTTAGATTGCGCAACAT
CAAATCAATGTAGCATGCTTCTGTACCTTCAAGGTTCGTCCTTCTGAACTCTGATGTTCTTCTG
ATTAAAGTTTTCATTCCAAATGTTTATTTGGTCAGGTTGCCGCTAATTTATCAGCTCCAGTGTC
GTCAATCTCATTGGGCATACCTGCCCGGTCTCAACATGAGGTTAGTTTGGCAATTGGAAGAGTA
TCCGGGTTACTAGAAATATGGATATGGAATGCATCTACCAACAAAATTGAGAGTTCCAGTGCAT
GGCATGCACATGATCAAGTGGTAATGCTTCACATTAGTTGAGGATATTTTATCTTCGGAAAAAT
TGAAAAAGAAAAACGTCTAACATTACCATAGGTGACAGGTTTACGATGGGCTATCGATGGCAAT
TGTTTATTCAGCTGCAGTCAG
						
					

			
		

Sequences
Splice junction sequence	TATCTTCGGAAAAATTGAAAAAGAAAAACGTCTAACATTACCATAGGTGACAGGTTTACGATGG GCTATCGATGGCAATTGTTTATTCAGCTGCAGTCAGgagttggtggttttatttatgacggcaa tgaagttgatttagatgcttcaaaggatgcagacttctcgatggaaccatgctcaaaatcaaag aagaaatc
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	GAGTTGGTGGTTTTATTTATGACGGCAATGAAGTTGATTTAGATGCTTCAAAGGATGCAGACTT CTCGATGGAACCATGCTCAAAATCAAAGAAGAAATCTTTGAAAAAGGTAGAGATTTTACACATC TATGCTGAAGTCTTGGTTTATTCTTTTACTTTGTAATAAAAGGGAAACCTAGTTGATTCTTAAC AAAAAAAAGAACCAATTATTCCCTCCGCTTTTAAATGGTACTTTGGACTTGGTACATCCATTTG AATTTTGGAGTATTCATCTTTCCTTCAAATATTTATGCAAATAGACAAACATACAAGGCTTGCT TAAAGTACTTTAGATGACATATCTAGCGACACTCTTTTAAGTTTCGTTAGCTACTAAGTAATTG AATAAATATTGCTGGTCAATGTACATGACTGTTTTGTGTTTTCTATTTAACATTACTGTGTTTG TGATTCCAGACTGTAAAACCCAGGGATGAAGTGGTTGCTGTAAATGGACGAAACAGCACAGGGA ATGTTAAAGCATCATTGTCCTCCAATGAACAAAACAAATCTCTTCCTCTTATCACGGCAAAACA GTATGCCTGTCGTGCTGCACATTTGTCTTCCCTTGTAGTTTCATGGTCTCCAGTTGTGTCATTA AGTGATAGAACTTCTTGTTTATTGAGGCATTGGTGCATTCTTGCTGTTGGCTCTAAATCTGGAA ATATTTCTTTTTGGAAACTATATAAGCCAGAATATTACACAATAGATGCTGGTGTGGTTACCAG TGATCCGATGCTCATCGGGGTTTTGCATGCTCATGAATCATGGGTCAATGCCATAACTTGGCAA GTTCTTTCTGCGGGCTCTTCAAAATCCTCGTTGCTTTTAGCTACTGGATGCTCAGATGGAAGGT AACCATTTTATGCATATTGTCTGTAAATGGTGATGTGCTTTTTTCAGCTGCACTATGTATTGTT TCTTGTTTGCTTACGTGAATTTTGTGAGCTCTTCTTGACTCATGACATGGCAAAAGTGATATAT GGGGATAATCATAAGCATAGCTTTGCTTCTATGTTTTCTGGAATAAGGTCCAAGTTTGTCCATA AGCAGCAGTGAGCAGAATGACCTGTATAGGCATGCAATGAGCCTGTCATACCTCTGCCTTAATA AATAAAAAAGAAAGCACACCAGATTGTTGGGATTAGGGTTACGGAGGTCATACGAGTGGTAGGT TTGGGGTCTAGGGCCACGACCCCGGCGCTTGGGCGTCGTCGGGCTGTTGGTGGAGAAGGCGAGG TACTGTCCACGAGATGAACAGTAGCCGCGATGAACACTAATGGGATATGGGAAGCACGGGCAAG ATAATTGCCTGCTTGCTCCTTTCTTTAACCAAAGGGGTACAATATATAGGCTGTCATAGCAGCC CCTAACGAACTAACCAACTCTATCTACGAGTTTCAAACTAATGCTTATGCATCTGAACAAACTA ATTGATACTTATGCATCTAAACAAACTAATTGATACTTATGCATCTAAACAAACTAAGAACTAA CTGATGCTTATCCATCTAAACAAACTACCTGATTTTTTAGGGCTTTTGGGCGCTGCCAGTCATA ACACCCCCCCCCCCCAAAAAAAAATTATAATCACGCAACACATTCTCTGCACTAGATATCTGGG TGGTGGTGAAAATACTTTACCCATGTGCCTTAAAAAGATTCTCATTGGTCTTTTTATATTTTAT AAACTTTGGTTATTCCTATGGTTATTTTTTGCCTTTCAATGGTTATTATTAGTTTTCTGCAGAC ACTGCATATCACATGTTGAAGATTTGGTTTGTATTTTCAGTGTTAAGATATGGTTAGGGAATAT TGAAGGGTTAAATCAATGTGCAATTGGAGAAGAAGTGCCATTTGTGTTAGTTGCTGAGGTATGT AATATATACCTAGTGGAGTTCACACTTTACATGTACAATTTATGGTTTTTAGATTGCGCAACAT CAAATCAATGTAGCATGCTTCTGTACCTTCAAGGTTCGTCCTTCTGAACTCTGATGTTCTTCTG ATTAAAGTTTTCATTCCAAATGTTTATTTGGTCAGGTTGCCGCTAATTTATCAGCTCCAGTGTC GTCAATCTCATTGGGCATACCTGCCCGGTCTCAACATGAGGTTAGTTTGGCAATTGGAAGAGTA TCCGGGTTACTAGAAATATGGATATGGAATGCATCTACCAACAAAATTGAGAGTTCCAGTGCAT GGCATGCACATGATCAAGTGGTAATGCTTCACATTAGTTGAGGATATTTTATCTTCGGAAAAAT TGAAAAAGAAAAACGTCTAACATTACCATAGGTGACAGGTTTACGATGGGCTATCGATGGCAAT TGTTTATTCAGCTGCAGTCAG

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.107555769

Conservation Information
Conserved circRNAs	NA
PMCS	0.107555769

			
						 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 Zm00001d012974_circ_g.2

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