Plant Circular RNA Database

Detail information of Zm00001d045025_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d045025_circ_g.2
					
						ID in PlantcircBase
						zma_circ_000452
					
						Alias
						NA
					
						Organism
						
							Zea mays						
					
						Position
						
							chr9: 10467397-10470205  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						SMALT, Segemehl
					
						Parent gene
						
							Zm00001d045025						
					
						Parent gene annotation
						
							20 kDa chaperonin chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d045025_circ_g.1 Zm00001d045025_circ_g.3 						
					
						Support reads
						4
					
						Tissues
						shoot
					
						Exon boundary  
						
							No-No							"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
						Zm00001d045025_T007:2
Zm00001d045025_T008:1
Zm00001d045025_T002:1
Zm00001d045025_T003:1
Zm00001d045025_T004:1
Zm00001d045025_T001:1
Zm00001d045025_T005:2
Zm00001d045025_T006:2

General Information
CircRNA Name	Zm00001d045025_circ_g.2
ID in PlantcircBase	zma_circ_000452
Alias	NA
Organism	Zea mays
Position	chr9: 10467397-10470205 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	SMALT, Segemehl
Parent gene	Zm00001d045025
Parent gene annotation	20 kDa chaperonin chloroplastic
Parent gene strand	-
Alternative splicing	Zm00001d045025_circ_g.1 Zm00001d045025_circ_g.3
Support reads	4
Tissues	shoot
Exon boundary	No-No "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	Zm00001d045025_T007:2 Zm00001d045025_T008:1 Zm00001d045025_T002:1 Zm00001d045025_T003:1 Zm00001d045025_T004:1 Zm00001d045025_T001:1 Zm00001d045025_T005:2 Zm00001d045025_T006:2

			
						 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  
						
							GACATTAGAAGTTACTAATCCACCATAAACAACAATTTACCTCTATATCCACAGCTATTTTCTT
GTCCCCGATGGTCCTTCCTGCTCCAACAGCAACAACctcagtcccagcatactttgagtatact
acttgtgctccagtctgaaagacaaaaggatacacattaaggccaagcatttcatgggcaatga
agaagagt

									
								

					

						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
						
							CTCAGTCCCAGCATACTTTGAGTATACTACTTGTGCTCCAGTCTGAAAGACAAAAGGATACACA
TTAAGGCCAAGCATTTCATGGGCAATGAAGAAGAGTGCTAAACAATAAGCACTTGGGCAGAGGG
CAGTAGTACACATGAAAATTAGGTTGGCAGCATATTACATCAAACATCATCCAACTTATCTGCT
AGTAAATTTAGACATAGTTGCTATACTAAAGCAGTCAAAGCTCCAGCTAAATTGCAGGAAGCAA
GTTTGGTAAAAACAATTTCCTACATATGCTATCCCAAAATCATCCTCCTGTTACCACAAATCCC
TAATGCAAAGCAGAGCATAATGGTCAAGGAATATATTTGTGGCAGGGCCTAAGGAGGCCCACGG
AGGGGCTGCGACCTATTCCAGCTGCCTGTCCATGTGCGCCTGTTGCGACCTATTCCATGTGCCC
ATCCATGTGTGCCCCTTTCATACAGATGGTGTCCATGGGATCCAGGTGGCTGGCAAGTCCAATG
CACGGAGGGTGTCTGCCTCATCTTATGGGGTCATAAAAAATTCAGATTCGGAATAATAAGATAA
GCCGAGATGTAAAAGGCTTGTCTTCTAGGTGTCTGGTTTTAGGTCAAGTAGACTCGATCTTTGA
GCGCTCGTCATGCTGCAGCTCGAGGCCGAGTTGATTGTCCAGGAGGAGTGTAGTGTCAGGGCCT
AAGGAGGCCCACGGAGGGGTGCGACAGCAGCAGCCATGGACCCTCCAAGGGGGATTAGATAAGG
ATAGTTAGAGATAAGATTAGAAGATTAGTTGAGATTATTTAGGAGATTAGTTGAAATTATTTAG
GAAAGTTATCAGTTAGTTTGTTGAGAGTTTTTAGGAGTTTTAAGGAGATAAGGATCTCTAGCTA
GACAGGGGCGGTCAGCCGGCCTATTTATGTAATCAATGGATGACAAATAAAGTAGGCAAGAATT
AAAAGGGAGAAACCCTCCTCTTGCTCGGCCGTGGGCATATAGGCCCCCGCCCGACATCGATACC
CCTCTCCAATCCCTCACCGATCTAGCGACCATAACAATTTGCACGAGTGGACTTTTGAAGGATT
GGAATCCTATCGAAAATTTTCAATGAAGAAATTTTGAAGGATTGAGATCCTATAGGAAATTTTC
CTATGTGGCCCTTCAGAACAAAGGATTGGGTTTCTACAAATCCTATAAAAATCCTATGGAATGG
CCCATTGTATTGAGATTTTGGAGGATTTCTAACCAAGGTTATTAAAACGACGAAAGGTTGAAAC
ACTCATGGGTAGAGTTTTGACTTTTAAACGTTTTAAACATAGGAAAGCTTCAATATATCGTAAT
TTCAGACAATAACCAACATAAGTTCACATGATAATATTGTGCAAAATGACATGTCCACAAACAC
ATTACCACAATAACACAAGTTCAAAGACAACCGCAAACAAAGTGAAATGAGATGTGACAAATTA
GCTATATCTTTTGCTTCGCACTTCCAATGACTACTCTAACTCAGTCTCACAGGTATGGCTTGTA
TCTAAGAAACATGTAACAATTAGCTAGAAGGAAAAGAATAGTTCCATAGTACAATTATCAGATG
CACAGAGTACCTAGTAACAAAAAGGAAAGTAGGATTATATAGGTATCACATGACCTTTTTGACG
GAACCACCTTTAACCTCCAACTTTACCATTTCCTTGACAATTCACCATTAAAAGTTTAACAGTG
ATTGTCAAATTCTTAGTAATTTGGGACTTAACACGGAATATTCAGTTGCAGCCTGGAAACCTGA
TGCTTTCCGTTGGCTACCAGGTGCTTCGGGGGAGTGCTCTGCTAGAACAGCATACCAACATTTC
TTGGCTGGTTCTGTGGATTTTGAGCCAGGTGAAAGGATATGGAAGAGTTGGGCACCCCCTAAGT
GCAAATTCTTCATTTGGCTTGCTTCCCTTAATAGGTGTTGGACGGCGGATCGTCTAGCACGTAG
AGGTCCTGACACCCGGGGAAATGCGTTCTTTGACCTTTGTGATCAGCAGCAGGAGACAATTCAA
CACATCTTGATTTCATGTGTGTTCTCCAGGAATATATGGTGGCAGATCTTAAGTAGAGTGGGGC
TGCAGCTTGTGTCACCAGGGCTGGAGGTATCTATGTTCCAGGATTGGTGGAGTGTGGCTGAAGG
TCTTGTGCCAATTTTGCAGAAATGGTTTCAACGTAATGGTTATTCTTGTGGCTTGGTGGATCTG
GAATCACAGAAATGCTTGTGCTTTTTTATGGTGTTTCTCCAAATACGAGTTCAGTTCTACAGCA
TATCCATGAGGATGCCATGCTTTGGGAATTGGCAGGTGCTAAGGCACTGAGAAGGTTGTGGCCT
TGATTTGGGGATGTCTTAGTTATTTCTCTTTTTTCCCTTTTTTGTATAGTCCTTTGTTTGGTTT
TTTCCCTGCTTTCTTTGGATATTTGTCACCCTGTACGTGGTCTTCTTTAGACCTTTCTCTCTAC
TTAATATAATGATGTGCAGTTCTCCTGCGTGTTCGATAAAAAAGTTTAACAGTGTGTTCTTGTT
TGTATAATATGAAGCCTACTGGTAAGCAACTGAGTATCAAGTCCTTGGTCGGCGCATCACATGA
AATTAAGTTTGGCTACAAGCATGAAACCCCGTCTCATGATGTCCATATTTACCACCAGCAATTC
ATAGCAGAGGCATATATATTAGACATTAGAAGTTACTAATCCACCATAAACAACAATTTACCTC
TATATCCACAGCTATTTTCTTGTCCCCGATGGTCCTTCCTGCTCCAACAGCAACAAC
						
					

			
		

Sequences
Splice junction sequence	GACATTAGAAGTTACTAATCCACCATAAACAACAATTTACCTCTATATCCACAGCTATTTTCTT GTCCCCGATGGTCCTTCCTGCTCCAACAGCAACAACctcagtcccagcatactttgagtatact acttgtgctccagtctgaaagacaaaaggatacacattaaggccaagcatttcatgggcaatga agaagagt
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	CTCAGTCCCAGCATACTTTGAGTATACTACTTGTGCTCCAGTCTGAAAGACAAAAGGATACACA TTAAGGCCAAGCATTTCATGGGCAATGAAGAAGAGTGCTAAACAATAAGCACTTGGGCAGAGGG CAGTAGTACACATGAAAATTAGGTTGGCAGCATATTACATCAAACATCATCCAACTTATCTGCT AGTAAATTTAGACATAGTTGCTATACTAAAGCAGTCAAAGCTCCAGCTAAATTGCAGGAAGCAA GTTTGGTAAAAACAATTTCCTACATATGCTATCCCAAAATCATCCTCCTGTTACCACAAATCCC TAATGCAAAGCAGAGCATAATGGTCAAGGAATATATTTGTGGCAGGGCCTAAGGAGGCCCACGG AGGGGCTGCGACCTATTCCAGCTGCCTGTCCATGTGCGCCTGTTGCGACCTATTCCATGTGCCC ATCCATGTGTGCCCCTTTCATACAGATGGTGTCCATGGGATCCAGGTGGCTGGCAAGTCCAATG CACGGAGGGTGTCTGCCTCATCTTATGGGGTCATAAAAAATTCAGATTCGGAATAATAAGATAA GCCGAGATGTAAAAGGCTTGTCTTCTAGGTGTCTGGTTTTAGGTCAAGTAGACTCGATCTTTGA GCGCTCGTCATGCTGCAGCTCGAGGCCGAGTTGATTGTCCAGGAGGAGTGTAGTGTCAGGGCCT AAGGAGGCCCACGGAGGGGTGCGACAGCAGCAGCCATGGACCCTCCAAGGGGGATTAGATAAGG ATAGTTAGAGATAAGATTAGAAGATTAGTTGAGATTATTTAGGAGATTAGTTGAAATTATTTAG GAAAGTTATCAGTTAGTTTGTTGAGAGTTTTTAGGAGTTTTAAGGAGATAAGGATCTCTAGCTA GACAGGGGCGGTCAGCCGGCCTATTTATGTAATCAATGGATGACAAATAAAGTAGGCAAGAATT AAAAGGGAGAAACCCTCCTCTTGCTCGGCCGTGGGCATATAGGCCCCCGCCCGACATCGATACC CCTCTCCAATCCCTCACCGATCTAGCGACCATAACAATTTGCACGAGTGGACTTTTGAAGGATT GGAATCCTATCGAAAATTTTCAATGAAGAAATTTTGAAGGATTGAGATCCTATAGGAAATTTTC CTATGTGGCCCTTCAGAACAAAGGATTGGGTTTCTACAAATCCTATAAAAATCCTATGGAATGG CCCATTGTATTGAGATTTTGGAGGATTTCTAACCAAGGTTATTAAAACGACGAAAGGTTGAAAC ACTCATGGGTAGAGTTTTGACTTTTAAACGTTTTAAACATAGGAAAGCTTCAATATATCGTAAT TTCAGACAATAACCAACATAAGTTCACATGATAATATTGTGCAAAATGACATGTCCACAAACAC ATTACCACAATAACACAAGTTCAAAGACAACCGCAAACAAAGTGAAATGAGATGTGACAAATTA GCTATATCTTTTGCTTCGCACTTCCAATGACTACTCTAACTCAGTCTCACAGGTATGGCTTGTA TCTAAGAAACATGTAACAATTAGCTAGAAGGAAAAGAATAGTTCCATAGTACAATTATCAGATG CACAGAGTACCTAGTAACAAAAAGGAAAGTAGGATTATATAGGTATCACATGACCTTTTTGACG GAACCACCTTTAACCTCCAACTTTACCATTTCCTTGACAATTCACCATTAAAAGTTTAACAGTG ATTGTCAAATTCTTAGTAATTTGGGACTTAACACGGAATATTCAGTTGCAGCCTGGAAACCTGA TGCTTTCCGTTGGCTACCAGGTGCTTCGGGGGAGTGCTCTGCTAGAACAGCATACCAACATTTC TTGGCTGGTTCTGTGGATTTTGAGCCAGGTGAAAGGATATGGAAGAGTTGGGCACCCCCTAAGT GCAAATTCTTCATTTGGCTTGCTTCCCTTAATAGGTGTTGGACGGCGGATCGTCTAGCACGTAG AGGTCCTGACACCCGGGGAAATGCGTTCTTTGACCTTTGTGATCAGCAGCAGGAGACAATTCAA CACATCTTGATTTCATGTGTGTTCTCCAGGAATATATGGTGGCAGATCTTAAGTAGAGTGGGGC TGCAGCTTGTGTCACCAGGGCTGGAGGTATCTATGTTCCAGGATTGGTGGAGTGTGGCTGAAGG TCTTGTGCCAATTTTGCAGAAATGGTTTCAACGTAATGGTTATTCTTGTGGCTTGGTGGATCTG GAATCACAGAAATGCTTGTGCTTTTTTATGGTGTTTCTCCAAATACGAGTTCAGTTCTACAGCA TATCCATGAGGATGCCATGCTTTGGGAATTGGCAGGTGCTAAGGCACTGAGAAGGTTGTGGCCT TGATTTGGGGATGTCTTAGTTATTTCTCTTTTTTCCCTTTTTTGTATAGTCCTTTGTTTGGTTT TTTCCCTGCTTTCTTTGGATATTTGTCACCCTGTACGTGGTCTTCTTTAGACCTTTCTCTCTAC TTAATATAATGATGTGCAGTTCTCCTGCGTGTTCGATAAAAAAGTTTAACAGTGTGTTCTTGTT TGTATAATATGAAGCCTACTGGTAAGCAACTGAGTATCAAGTCCTTGGTCGGCGCATCACATGA AATTAAGTTTGGCTACAAGCATGAAACCCCGTCTCATGATGTCCATATTTACCACCAGCAATTC ATAGCAGAGGCATATATATTAGACATTAGAAGTTACTAATCCACCATAAACAACAATTTACCTC TATATCCACAGCTATTTTCTTGTCCCCGATGGTCCTTCCTGCTCCAACAGCAACAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.250665842

Conservation Information
Conserved circRNAs	NA
PMCS	0.250665842

			
						 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
						Lu et al., 2015

circRNA

Detail information of Zm00001d045025_circ_g.2

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