Plant Circular RNA Database

Detail information of Zm00001d007698_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d007698_circ_g.1
					
						ID in PlantcircBase
						zma_circ_001252
					
						Alias
						circ2461
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 237619320-237622515  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRCexplor2
					
						Parent gene
						
							Zm00001d007698						
					
						Parent gene annotation
						
							AAA-type ATPase family protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d007698_circ_g.2 Zm00001d007698_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  
						
							CT-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
						Zm00001d007698_T009:10
Zm00001d007698_T026:10
Zm00001d007698_T032:9
Zm00001d007698_T025:10
Zm00001d007698_T023:10
Zm00001d007698_T027:10
Zm00001d007698_T031:10
Zm00001d007698_T024:9
Zm00001d007698_T029:10
Zm00001d007698_T005:10
Zm00001d007698_T028:10
Zm00001d007698_T036:10
Zm00001d007698_T040:6
Zm00001d007698_T037:10
Zm00001d007698_T001:10
Zm00001d007698_T035:10
Zm00001d007698_T038:10
Zm00001d007698_T006:10
Zm00001d007698_T007:10
Zm00001d007698_T010:10
Zm00001d007698_T030:10
Zm00001d007698_T034:10
Zm00001d007698_T012:10
Zm00001d007698_T039:10
Zm00001d007698_T016:10
Zm00001d007698_T033:10
Zm00001d007698_T021:10
Zm00001d007698_T002:10
Zm00001d007698_T014:10

General Information
CircRNA Name	Zm00001d007698_circ_g.1
ID in PlantcircBase	zma_circ_001252
Alias	circ2461
Organism	Zea mays
Position	chr2: 237619320-237622515 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d007698
Parent gene annotation	AAA-type ATPase family protein
Parent gene strand	-
Alternative splicing	Zm00001d007698_circ_g.2 Zm00001d007698_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	CT-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	Zm00001d007698_T009:10 Zm00001d007698_T026:10 Zm00001d007698_T032:9 Zm00001d007698_T025:10 Zm00001d007698_T023:10 Zm00001d007698_T027:10 Zm00001d007698_T031:10 Zm00001d007698_T024:9 Zm00001d007698_T029:10 Zm00001d007698_T005:10 Zm00001d007698_T028:10 Zm00001d007698_T036:10 Zm00001d007698_T040:6 Zm00001d007698_T037:10 Zm00001d007698_T001:10 Zm00001d007698_T035:10 Zm00001d007698_T038:10 Zm00001d007698_T006:10 Zm00001d007698_T007:10 Zm00001d007698_T010:10 Zm00001d007698_T030:10 Zm00001d007698_T034:10 Zm00001d007698_T012:10 Zm00001d007698_T039:10 Zm00001d007698_T016:10 Zm00001d007698_T033:10 Zm00001d007698_T021:10 Zm00001d007698_T002:10 Zm00001d007698_T014:10

			
						 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  
						
							AGAATAAAAAAGTAAGATAAAGAAAAGTTACCGGGAAAAGGTCAAAAAGTGTCTGGCTGCTACT
GGCAAACTTTGTGAAAAGAAAACCTCCAGGATGCGCcctgcgggggaacctcctaatcacagcc
tcgtccaggtcaaaaggtctatttgtagcaccaagaacaagcacacgctccttatctttagtgc
gcagtcca

									
								

					

						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
						
							CCTGCGGGGGAACCTCCTAATCACAGCCTCGTCCAGGTCAAAAGGTCTATTTGTAGCACCAAGA
ACAAGCACACGCTCCTTATCTTTAGTGCGCAGTCCATCCCAATTTACCATAAATTCATTCTTCA
TCTTGCGCATCGCTTCATGCTCCCCTGGATTTTCTCTCCTTCCTAGCATACTATCGACCTGCAG
AAAGTCAAAGACAGTTGGTGTACACTGTACCAACAGTGTTTACTAATGTAACCTGTCTGCTTGC
ATACCTCATCGATAAATATAACACTGGGGGCTATTTTACTTGCTAGTGAGAAAACAGCCTTTAC
ATACTTCTCCCCTTCACCAAACCACTGAAAGTAAACGAACCACTGGTTAGGCTTGAGACACAAG
TGAATCTCATCAGTTGCCCGCTAGGTCAAATAATACCTTCGACGTAATGCTCGACATTGATATA
TTGATGAAATTAGCACCTGCTTCAGTTGCTACTGCTTTGGCAAGCATAGTTTTCCCAGTGCCAG
GAGGTCCGAAAAGCAATATTCCCTTGCAAGGCTGCAAAGAATAAATTGGGGATCATGACCATAG
TACATCAAAATAATCTACAATTGAAGTTTTCAAACGCCCAACATATCTAACACTACTAATATAC
AAAGTACTAACACATTATAAAATCAACAACAACAACAACAACAACAACAACAAAGCCTTTTGTC
CCAAGCACGTTGGGGTAGGCTAGAGATGAAACCCCGTATGAAAACCTCAGAGCTCAACCCCCAA
AGAAAAAAGGGGAAACAAAGGCAAAGGAGAACCGAAAACGACGAAACGGGGGAACACATAAAAG
AGATAAAACCCACAAGAACCAGCAAGGTCTAAATGGGCACAAGAAAAGGTCAAACGATTAAGGA
GGAAAAGCGGAACTATAAATCAAGGTTCTGGCACGTGAATTGCACACTTCCACCCCTTCCTATC
CACGGCGAGCTCTTTATCAATATTCCACTCCTTCAGGTCCCTCTTCACTGCCTCTGTCCTTGTG
GGTAAGGGATCACCGGAAGCCAAGAATTCATGTAAATTCAGGCCAGACCAACTAATCCATAAGG
CTAAAGGCCTGTTTGGTGTGACGCTGAAACCGCCGCACCGCGCCTAAGCCGCGGCGCTCGATTT
GGCCGCCACAACTGCGGCACAAAATCTGTGGCGCGTGTGGGCGGCGGTCAACCAAACATGCTCT
AAATCTTAGTATCCGATAGTATTTTCCCACTCTTTAGAAAATTGAAAAACCTTACAGAAACAAT
GCTGCCAAATTAACAAGAGGACTGGTGTATTCAGATAACTCTGGAAGACCGAATAAAACTGATG
CTCCTGGATATTTTATTTTGGCATTCATGCAAATTCTTTAGCAAATATTCAAGCAATACTATGA
AATGGAAAAAAGTCATGTGTGTATCTTAGCTCAGCTCAAAACAAAATATATTAAATGGTTCTTA
GACCGTGGAATCAACGCTTGAGAAAAATATCAACCATATGGTCAACCTACGGTTGAAAGAAAAC
TCTGACACCTCATGTAATGAACCGATTTCAAACATAATTAGGCATTATGATGCTACCTTTGTTA
GCTGCCCTTTGCAGAACAATTCAGGTCTTTGTAAAGGGAGCATCACCAGCTCCTTTAATGTGTC
CTTTACATTCTCCAAGGCTCCAATATCATCAAAGGTAACTCCAATGTCATTAGGTGGTATAACA
TCCACCAAAAGCCTTTTCTCAAATTCATTCTCTGTGACAACATCCTGAGAAAAAGGACTTGTAA
GTAGAGTGTTCAGTAAATAACTCGAGGAATCACCAAAAAGCACGGCAATATGTAGGGGATTGTA
CCTTCAGTGATTTTTTCGAGCTCTTGTTATCACTTTGCATGCTTTGCAGCATGTTGAGCCCATG
CTTAAGGCTGTCAAGTAAATAATTCAAAATTCCACTGAGAATTGATTTGAAAAGAAACATAGGA
AAAATAGTTGTCAACAAAAAAAAATACCTTTCACTTGTGAGTACAAGTTTATTATCCTTCGAGT
TGGAGGTTTCAATTTTATTGTGCTTAAGGTGATAACTCACTGCGTATCCAACAATCTTGTCCAC
ATCTAAGAAAGGTTGGAGTAAAAAAGTTTAAATTGAAATTTTTAGATGAAATATAAACAAACCA
AAACAAAATTACTTACTTTCATTACTCAGTGATTGGTCTTTGATGAATAATTCTTCAATATCAT
TGCATTCAATTCCATTGCGACTCAGAAACTGCATTACAGTGAAATTGAAGAACCATATAATGTC
CGATTCACTAATCAAAACTAACCACAAAAATTAAATGCTTCAAGTAAACATGAAAGGCTCAACG
CAGACATTTTGGTTAAATAGCTACATCAAAAAGTTACTTCTATGAGGATATTTGATGCTTTCAA
CAACCACATTAACACCAAAAGCATACATAGACATAAAATAATTGCATAATCATACAAATGGTCA
AAATATACATTCATACAGAAAAAGGCAACAAAGTATCAAACAGAAGAAATACTATCAAACACAT
GCAAATGGTCATTTGTTAATAATACACCCAGGCCATATTAGATCAGGCATCACAGGCCCACCAG
TTTAAAGAAAGATGCACAGTTGACAGTGGGATATATTAAGTTCCAAGAAACCCATATAACTCTG
TCTTCAATTCTGCAGCTTACCGTGCGAATGCTACCAATGTTTGATTTGGCTTTAAGGGTTTCAA
CATCACGATCCAACTGCTGCTTCCAATCTGTAAGTAGAGCTTCATCCTGTAAATTTAATTATTT
AGATCAAAAAACATATTTAATAACAACTAAATGAGTATGACAAGAGATGTAATCACCTGCGGAA
GCTGAATCGAAATCTTGTTTGGGAAAAGCTTATTCAGATGTTTCATTGCCTTTGGACTTTCTTT
GCTTCTTTCATGCAACCACCTGCTACCAAAGCTATCCTGCATTTTTAAAATCATATTAAATTAA
AATAATGCAAATCAGGAACATAACATCAATATCATGGTTCACGAGATTACCAAATTTAATCATG
TATGTACATATAAAAATTTCAAGAAGAATAAAAAAGTAAGATAAAGAAAAGTTACCGGGAAAAG
GTCAAAAAGTGTCTGGCTGCTACTGGCAAACTTTGTGAAAAGAAAACCTCCAGGATGCGC
						
					

			
		

Sequences
Splice junction sequence	AGAATAAAAAAGTAAGATAAAGAAAAGTTACCGGGAAAAGGTCAAAAAGTGTCTGGCTGCTACT GGCAAACTTTGTGAAAAGAAAACCTCCAGGATGCGCcctgcgggggaacctcctaatcacagcc tcgtccaggtcaaaaggtctatttgtagcaccaagaacaagcacacgctccttatctttagtgc gcagtcca
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	CCTGCGGGGGAACCTCCTAATCACAGCCTCGTCCAGGTCAAAAGGTCTATTTGTAGCACCAAGA ACAAGCACACGCTCCTTATCTTTAGTGCGCAGTCCATCCCAATTTACCATAAATTCATTCTTCA TCTTGCGCATCGCTTCATGCTCCCCTGGATTTTCTCTCCTTCCTAGCATACTATCGACCTGCAG AAAGTCAAAGACAGTTGGTGTACACTGTACCAACAGTGTTTACTAATGTAACCTGTCTGCTTGC ATACCTCATCGATAAATATAACACTGGGGGCTATTTTACTTGCTAGTGAGAAAACAGCCTTTAC ATACTTCTCCCCTTCACCAAACCACTGAAAGTAAACGAACCACTGGTTAGGCTTGAGACACAAG TGAATCTCATCAGTTGCCCGCTAGGTCAAATAATACCTTCGACGTAATGCTCGACATTGATATA TTGATGAAATTAGCACCTGCTTCAGTTGCTACTGCTTTGGCAAGCATAGTTTTCCCAGTGCCAG GAGGTCCGAAAAGCAATATTCCCTTGCAAGGCTGCAAAGAATAAATTGGGGATCATGACCATAG TACATCAAAATAATCTACAATTGAAGTTTTCAAACGCCCAACATATCTAACACTACTAATATAC AAAGTACTAACACATTATAAAATCAACAACAACAACAACAACAACAACAACAAAGCCTTTTGTC CCAAGCACGTTGGGGTAGGCTAGAGATGAAACCCCGTATGAAAACCTCAGAGCTCAACCCCCAA AGAAAAAAGGGGAAACAAAGGCAAAGGAGAACCGAAAACGACGAAACGGGGGAACACATAAAAG AGATAAAACCCACAAGAACCAGCAAGGTCTAAATGGGCACAAGAAAAGGTCAAACGATTAAGGA GGAAAAGCGGAACTATAAATCAAGGTTCTGGCACGTGAATTGCACACTTCCACCCCTTCCTATC CACGGCGAGCTCTTTATCAATATTCCACTCCTTCAGGTCCCTCTTCACTGCCTCTGTCCTTGTG GGTAAGGGATCACCGGAAGCCAAGAATTCATGTAAATTCAGGCCAGACCAACTAATCCATAAGG CTAAAGGCCTGTTTGGTGTGACGCTGAAACCGCCGCACCGCGCCTAAGCCGCGGCGCTCGATTT GGCCGCCACAACTGCGGCACAAAATCTGTGGCGCGTGTGGGCGGCGGTCAACCAAACATGCTCT AAATCTTAGTATCCGATAGTATTTTCCCACTCTTTAGAAAATTGAAAAACCTTACAGAAACAAT GCTGCCAAATTAACAAGAGGACTGGTGTATTCAGATAACTCTGGAAGACCGAATAAAACTGATG CTCCTGGATATTTTATTTTGGCATTCATGCAAATTCTTTAGCAAATATTCAAGCAATACTATGA AATGGAAAAAAGTCATGTGTGTATCTTAGCTCAGCTCAAAACAAAATATATTAAATGGTTCTTA GACCGTGGAATCAACGCTTGAGAAAAATATCAACCATATGGTCAACCTACGGTTGAAAGAAAAC TCTGACACCTCATGTAATGAACCGATTTCAAACATAATTAGGCATTATGATGCTACCTTTGTTA GCTGCCCTTTGCAGAACAATTCAGGTCTTTGTAAAGGGAGCATCACCAGCTCCTTTAATGTGTC CTTTACATTCTCCAAGGCTCCAATATCATCAAAGGTAACTCCAATGTCATTAGGTGGTATAACA TCCACCAAAAGCCTTTTCTCAAATTCATTCTCTGTGACAACATCCTGAGAAAAAGGACTTGTAA GTAGAGTGTTCAGTAAATAACTCGAGGAATCACCAAAAAGCACGGCAATATGTAGGGGATTGTA CCTTCAGTGATTTTTTCGAGCTCTTGTTATCACTTTGCATGCTTTGCAGCATGTTGAGCCCATG CTTAAGGCTGTCAAGTAAATAATTCAAAATTCCACTGAGAATTGATTTGAAAAGAAACATAGGA AAAATAGTTGTCAACAAAAAAAAATACCTTTCACTTGTGAGTACAAGTTTATTATCCTTCGAGT TGGAGGTTTCAATTTTATTGTGCTTAAGGTGATAACTCACTGCGTATCCAACAATCTTGTCCAC ATCTAAGAAAGGTTGGAGTAAAAAAGTTTAAATTGAAATTTTTAGATGAAATATAAACAAACCA AAACAAAATTACTTACTTTCATTACTCAGTGATTGGTCTTTGATGAATAATTCTTCAATATCAT TGCATTCAATTCCATTGCGACTCAGAAACTGCATTACAGTGAAATTGAAGAACCATATAATGTC CGATTCACTAATCAAAACTAACCACAAAAATTAAATGCTTCAAGTAAACATGAAAGGCTCAACG CAGACATTTTGGTTAAATAGCTACATCAAAAAGTTACTTCTATGAGGATATTTGATGCTTTCAA CAACCACATTAACACCAAAAGCATACATAGACATAAAATAATTGCATAATCATACAAATGGTCA AAATATACATTCATACAGAAAAAGGCAACAAAGTATCAAACAGAAGAAATACTATCAAACACAT GCAAATGGTCATTTGTTAATAATACACCCAGGCCATATTAGATCAGGCATCACAGGCCCACCAG TTTAAAGAAAGATGCACAGTTGACAGTGGGATATATTAAGTTCCAAGAAACCCATATAACTCTG TCTTCAATTCTGCAGCTTACCGTGCGAATGCTACCAATGTTTGATTTGGCTTTAAGGGTTTCAA CATCACGATCCAACTGCTGCTTCCAATCTGTAAGTAGAGCTTCATCCTGTAAATTTAATTATTT AGATCAAAAAACATATTTAATAACAACTAAATGAGTATGACAAGAGATGTAATCACCTGCGGAA GCTGAATCGAAATCTTGTTTGGGAAAAGCTTATTCAGATGTTTCATTGCCTTTGGACTTTCTTT GCTTCTTTCATGCAACCACCTGCTACCAAAGCTATCCTGCATTTTTAAAATCATATTAAATTAA AATAATGCAAATCAGGAACATAACATCAATATCATGGTTCACGAGATTACCAAATTTAATCATG TATGTACATATAAAAATTTCAAGAAGAATAAAAAAGTAAGATAAAGAAAAGTTACCGGGAAAAG GTCAAAAAGTGTCTGGCTGCTACTGGCAAACTTTGTGAAAAGAAAACCTCCAGGATGCGC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.032307217

Conservation Information
Conserved circRNAs	NA
PMCS	0.032307217

			
						 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 Zm00001d007698_circ_g.1

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