Plant Circular RNA Database

Detail information of Zm00001d015314_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d015314_circ_g.1
					
						ID in PlantcircBase
						zma_circ_002004
					
						Alias
						circ2123
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 84268722-84272436  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ui-circRNA							
									
						Identification method
						CIRCexplor2
					
						Parent gene
						
							Zm00001d015314						
					
						Parent gene annotation
						
							DExH-box ATP-dependent RNA helicase DExH11
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						2
					
						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-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
						Zm00001d015314_T006:2
Zm00001d015314_T015:2
Zm00001d015314_T022:2
Zm00001d015314_T019:2
Zm00001d015314_T002:2
Zm00001d015314_T024:2
Zm00001d015314_T001:2
Zm00001d015314_T003:2
Zm00001d015314_T013:2
Zm00001d015314_T017:2
Zm00001d015314_T021:2
Zm00001d015314_T008:2
Zm00001d015314_T004:2
Zm00001d015314_T011:2

General Information
CircRNA Name	Zm00001d015314_circ_g.1
ID in PlantcircBase	zma_circ_002004
Alias	circ2123
Organism	Zea mays
Position	chr5: 84268722-84272436 JBrowse»
Reference genome	AGPv4.38
Type	ui-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d015314
Parent gene annotation	DExH-box ATP-dependent RNA helicase DExH11
Parent gene strand	-
Alternative splicing	NA
Support reads	2
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-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	Zm00001d015314_T006:2 Zm00001d015314_T015:2 Zm00001d015314_T022:2 Zm00001d015314_T019:2 Zm00001d015314_T002:2 Zm00001d015314_T024:2 Zm00001d015314_T001:2 Zm00001d015314_T003:2 Zm00001d015314_T013:2 Zm00001d015314_T017:2 Zm00001d015314_T021:2 Zm00001d015314_T008:2 Zm00001d015314_T004:2 Zm00001d015314_T011:2

			
						 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  
						
							CAAGATGCCAAAGCATTGAAACCCTAAATAAAAAATAGAATCTCACCGTTCTTGCCGGTGCATT
GACACCCATTGCAAATGTCTCAGTGGAAAACAGTACccttcagttcctccacacgcagaagatg
tagtatcatggtgtatgttaatcgaaattgagattccaaacgagttggttttccaacgatcaaa
tttttcaa

									
								

					

						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
						
							CCTTCAGTTCCTCCACACGCAGAAGATGTAGTATCATGGTGTATGTTAATCGAAATTGAGATTC
CAAACGAGTTGGTTTTCCAACGATCAAATTTTTCAAATCGCTTTCTTCAGGAATTTCATCACGA
CACATAATGATCACAGTACCAATGTTATCAAGTCCTCTCCGACCAGCTCGCCCAGCCATTTGTA
TATATTCCCCTGGAAGCAATTTCCGGTGTTCTTTTCCATCAAACTTTCTTAAAGAATCAAACAC
AACCTGTTGGGTCAAAACTGAGATAGGCTCAGAGCTAGCTTCATAATCCTGAGTTTAAAAGGGC
ATGGAAAAAGCAAGTGCGACCTATGCACAGTTACAGTTATCTCAGTCCAAATGTGCAAAAAGAA
ACAAGGAAATTAAGGCATGCATCTGTCCAGGGGCGAAGCCAGGAGCCAGGTTTTTTTTTTTTGG
GGGGGGGGGGGACATTGCCCCCCTCTGCCCCCTCCCTGGCGTCGCCCCTGCATCTGTCATCTCA
AGCATCTATGTTAAAATGATTTATCTTTCCAACAAAGAAACACTGGGCAATGCATCAAGTGCAA
GAACAGCAAACAACAGAATATGTTGGTAAGATAAGAGCATCTCCAGGAGTTTGGTATAATCTAC
TTGCTAAACTAATAGACCTGCCAAGTTAACAGTAGAAATAGCAATCTTAATGATAGAGTACAAT
TGGTAGTATTGGATATCGTATATCTCTAGGAATCGTGTGTACCTAGGACTGCCATATGTATCCG
GGGAGGACTCTTGCCTCCCAAGTCTTGTACTCCTATATATACCGGCCCGAGGGCTCAATGCCAT
TGTTTAAAAGGCGTCGCCTAGGCGACGCCTAGGCATCCAGGCGACGAATTTGGCTAGGCGTCCG
CGCCGCCCAGGTGACATTGAGTATGGCGTCTGCCTAGGCGCGGTAGGCGTCTCGGCGACGCCTT
TCTCCCTCTGGGCGACGCCTTAGCCTAGGGTTTGCATTGGGTTAGGGTTTGCACTGGGCTTTAG
GCGCGTTTTGGGCTTCCCTGTGCGCGCGCTCTCTCCCCTCAGTGCGGCAAATTTCAGCGCCCTG
CGTGCGGCAAATTTCTCTGCGCGCGGCAAATCTCCCTGCGCGCGGTCTCTCTCGCGCGCTCTCC
CTCTCCCTGCGCGCGCTCGCGGCTGCTGCTCTGGGCGCGCGGCTACTCTCCCCTGCGCGCGCTC
AATCCCCTGTGCGCGCTCTCTCCCTGCGCGCGGCTCCCTTTGCTCCCTGCGCGCGGCTCCCTGC
GCGCGGCTGCTGCTGGGCACGGCTGCTGCTCCCTGGCCGCGCACGCTCGAGACTGCTGTGCTAG
CTGCTGCCTGCTGGTAAGTCCTACTCCCCGCGTTTCTCATCCCCTCCTCCCCTGCTTCCCCTGT
TTTCTCATCCCCTGCTTCCCCTGTTTTTAGACTGTGCAGCGACTGCATCGACTAGCGACAAGCC
GACAACATAATGTCTTCTCGAAATGAGGCTCCATCTTCTGTGGCTGGTGAGTACGACCCGAAGA
GCGATCCTACCCGGAAGCCACGGAAGTCTACTGATCCAGGGTGGAAGTATGGATTTTGGCCAGA
TCTTCAAAATAAAGATAAGGTGGAATGCACCCTATGTGGTCAGGTTGTTAGTGGAGGGATAAAG
AGGTTAAAGCAACATTTGGCAGGGGCATATGGAGTACCTTTGAATTTGTAAGTTATTATGTGTG
CCTCCTCAAGTCCTCATCCACCTACTTGGCTACTTTTGTATCCAATATTTCAGGATTAAATGAC
CAAGTGTTTTCTCTTTTCTTATTTTGTAGATCCATACAAAGAAAAGAAACCGATTGTTGCATAA
GAGGTTGAATTCTATTGTCTTCATTTCCTACAACAGAAAGATGAAAGCTAGGTTCCAAAAACTA
CGCCAGAAGAAGGGGAAAAACTTTGATCCATTGGTTCATGAGGACTTCAACTGGGACAATGAGT
GGGCTGATTCTTTGCATGTAGTCCCTGAAGGTGGGCGTGGGTGTGAGTGTGACCTTACATGGGA
CCTTGTGGATAATGCCATTGGAGCATCACAAGCACTTCGTGGCCGAAACTTACCAAGAAGGGCC
CATAATATGTATTCAAGAAGAAATTATGTTGCTGCAGGCTGAAGAGGAAGATGAAGATGAAGAA
GATGTTCCACATGACGATGCAGAAATCACAGATTGTGAAGATGAATCTAATGGTGGCAATGATG
GTGAAGAAGGGGAGGCACCCAATATCCCAGGAGAGTTTGATGATGATTTTTGAGCGACGGGAGA
CGGGGAGAGTAGCTATTGCTAGATTGCATTAGCATATTTGCTGCATTACTAACTGCAGCTAGTT
ACTATTAATTATGCCATTACAAACTATCTATGTAGCTATTTCAGATTTGGTATTGTGCTGTTTT
AAATTTTGTGACTTGCTATTGTTCCTTTAGAAACTACTTTGTGGCTATTTCAGATCCACTATTG
TGCTATTGTCAATTTGTGATGATTTCTAGTTTATGAGCTGTAACAGCTGTTTGGTTGCTTGGTA
TTTTGTAACAGCTGTTTGTAACAGCTACTAAGGCGTCGCCTAGGCGCCCGCCTAAGTCGCCTCT
AGGCGGTCAGGCGGTGGCTGGGCGCCTAGTTCCGCCTAGCCGCCTTTTAAACCATGCTCAATGC
AATACAATCAATCATCCAATCCCATCTATTTTTTTAGAACACCGCAGGAGAGCTGCAAGTCATT
GCATTAAGAAGAAATAAAAAGGGGTGACCACGAGGTCAGCCCAAATTACAAGGATGGTTAGGCC
ATGAGCACAGCAGCACACAATCTCTCCTTCCTACACTTAAATTTTGTCCTTCTCCAACAGTTTC
CAATAATAGCTTCCTAAATGATTTTGCATTGGGAACCCCAAACTATTATTAATTAATCATTTTT
AATAGTTTCTGTCTCTTACGCTTTCTCATCTTGAACCGTTTATTTCCACAATTAACGCATGTGT
CCGATTTACTCCAATCTCTCCCAATAAAAATGCCGAACGGGGAGCGGATACGGAGTTCCTCTCA
GCTGCAGAAACTTAAAAGTTGGAAAGGATATTTGGCATCTTTTTATTTTTAAAGAGCTCTTTTA
CCAAACTGTTGGAGTGCACTTTTTTCCCTTTTTGCTAAAATATTAAAATTGGGAGTTGTTTTAC
AAAACCCGTGGAGATGCTCTAGTACATAAAAATTGGTCCCACAGCATACCCGCCTGCAATTCAT
AGTGCCAACATAGAAAAATAGATTGCCTTTTCTAGGAACCAGCAGTGTGGGGTATGTGTCGGTT
CTTGTGGGTGTTTGAGTTCTTGTCGCATTTTTCTTTTTGATATAATGATATGCAGCTCTTCTGC
ATGTTCGAGAAAACTAGATTGCTAAATACAAATGATTAACCCAGGTAGCAGCTTCCTTGAAAAC
ACAATGAATGTAGAAGAGACGGTTTCATCCACAGGAAAATTTGAAATAAATTTTGTTCCCATGG
TTGCAGGAACACAGGTAAAATTAATATGTAGGAAGTAGAATGCAAGAGGTGCCACAAAACATAG
AATTAGATAGTAGATACTAGAGTGATTTGTTCAAGATGCCAAAGCATTGAAACCCTAAATAAAA
AATAGAATCTCACCGTTCTTGCCGGTGCATTGACACCCATTGCAAATGTCTCAGTGGAAAACAG
TAC
						
					

			
		

Sequences
Splice junction sequence	CAAGATGCCAAAGCATTGAAACCCTAAATAAAAAATAGAATCTCACCGTTCTTGCCGGTGCATT GACACCCATTGCAAATGTCTCAGTGGAAAACAGTACccttcagttcctccacacgcagaagatg tagtatcatggtgtatgttaatcgaaattgagattccaaacgagttggttttccaacgatcaaa tttttcaa
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	CCTTCAGTTCCTCCACACGCAGAAGATGTAGTATCATGGTGTATGTTAATCGAAATTGAGATTC CAAACGAGTTGGTTTTCCAACGATCAAATTTTTCAAATCGCTTTCTTCAGGAATTTCATCACGA CACATAATGATCACAGTACCAATGTTATCAAGTCCTCTCCGACCAGCTCGCCCAGCCATTTGTA TATATTCCCCTGGAAGCAATTTCCGGTGTTCTTTTCCATCAAACTTTCTTAAAGAATCAAACAC AACCTGTTGGGTCAAAACTGAGATAGGCTCAGAGCTAGCTTCATAATCCTGAGTTTAAAAGGGC ATGGAAAAAGCAAGTGCGACCTATGCACAGTTACAGTTATCTCAGTCCAAATGTGCAAAAAGAA ACAAGGAAATTAAGGCATGCATCTGTCCAGGGGCGAAGCCAGGAGCCAGGTTTTTTTTTTTTGG GGGGGGGGGGGACATTGCCCCCCTCTGCCCCCTCCCTGGCGTCGCCCCTGCATCTGTCATCTCA AGCATCTATGTTAAAATGATTTATCTTTCCAACAAAGAAACACTGGGCAATGCATCAAGTGCAA GAACAGCAAACAACAGAATATGTTGGTAAGATAAGAGCATCTCCAGGAGTTTGGTATAATCTAC TTGCTAAACTAATAGACCTGCCAAGTTAACAGTAGAAATAGCAATCTTAATGATAGAGTACAAT TGGTAGTATTGGATATCGTATATCTCTAGGAATCGTGTGTACCTAGGACTGCCATATGTATCCG GGGAGGACTCTTGCCTCCCAAGTCTTGTACTCCTATATATACCGGCCCGAGGGCTCAATGCCAT TGTTTAAAAGGCGTCGCCTAGGCGACGCCTAGGCATCCAGGCGACGAATTTGGCTAGGCGTCCG CGCCGCCCAGGTGACATTGAGTATGGCGTCTGCCTAGGCGCGGTAGGCGTCTCGGCGACGCCTT TCTCCCTCTGGGCGACGCCTTAGCCTAGGGTTTGCATTGGGTTAGGGTTTGCACTGGGCTTTAG GCGCGTTTTGGGCTTCCCTGTGCGCGCGCTCTCTCCCCTCAGTGCGGCAAATTTCAGCGCCCTG CGTGCGGCAAATTTCTCTGCGCGCGGCAAATCTCCCTGCGCGCGGTCTCTCTCGCGCGCTCTCC CTCTCCCTGCGCGCGCTCGCGGCTGCTGCTCTGGGCGCGCGGCTACTCTCCCCTGCGCGCGCTC AATCCCCTGTGCGCGCTCTCTCCCTGCGCGCGGCTCCCTTTGCTCCCTGCGCGCGGCTCCCTGC GCGCGGCTGCTGCTGGGCACGGCTGCTGCTCCCTGGCCGCGCACGCTCGAGACTGCTGTGCTAG CTGCTGCCTGCTGGTAAGTCCTACTCCCCGCGTTTCTCATCCCCTCCTCCCCTGCTTCCCCTGT TTTCTCATCCCCTGCTTCCCCTGTTTTTAGACTGTGCAGCGACTGCATCGACTAGCGACAAGCC GACAACATAATGTCTTCTCGAAATGAGGCTCCATCTTCTGTGGCTGGTGAGTACGACCCGAAGA GCGATCCTACCCGGAAGCCACGGAAGTCTACTGATCCAGGGTGGAAGTATGGATTTTGGCCAGA TCTTCAAAATAAAGATAAGGTGGAATGCACCCTATGTGGTCAGGTTGTTAGTGGAGGGATAAAG AGGTTAAAGCAACATTTGGCAGGGGCATATGGAGTACCTTTGAATTTGTAAGTTATTATGTGTG CCTCCTCAAGTCCTCATCCACCTACTTGGCTACTTTTGTATCCAATATTTCAGGATTAAATGAC CAAGTGTTTTCTCTTTTCTTATTTTGTAGATCCATACAAAGAAAAGAAACCGATTGTTGCATAA GAGGTTGAATTCTATTGTCTTCATTTCCTACAACAGAAAGATGAAAGCTAGGTTCCAAAAACTA CGCCAGAAGAAGGGGAAAAACTTTGATCCATTGGTTCATGAGGACTTCAACTGGGACAATGAGT GGGCTGATTCTTTGCATGTAGTCCCTGAAGGTGGGCGTGGGTGTGAGTGTGACCTTACATGGGA CCTTGTGGATAATGCCATTGGAGCATCACAAGCACTTCGTGGCCGAAACTTACCAAGAAGGGCC CATAATATGTATTCAAGAAGAAATTATGTTGCTGCAGGCTGAAGAGGAAGATGAAGATGAAGAA GATGTTCCACATGACGATGCAGAAATCACAGATTGTGAAGATGAATCTAATGGTGGCAATGATG GTGAAGAAGGGGAGGCACCCAATATCCCAGGAGAGTTTGATGATGATTTTTGAGCGACGGGAGA CGGGGAGAGTAGCTATTGCTAGATTGCATTAGCATATTTGCTGCATTACTAACTGCAGCTAGTT ACTATTAATTATGCCATTACAAACTATCTATGTAGCTATTTCAGATTTGGTATTGTGCTGTTTT AAATTTTGTGACTTGCTATTGTTCCTTTAGAAACTACTTTGTGGCTATTTCAGATCCACTATTG TGCTATTGTCAATTTGTGATGATTTCTAGTTTATGAGCTGTAACAGCTGTTTGGTTGCTTGGTA TTTTGTAACAGCTGTTTGTAACAGCTACTAAGGCGTCGCCTAGGCGCCCGCCTAAGTCGCCTCT AGGCGGTCAGGCGGTGGCTGGGCGCCTAGTTCCGCCTAGCCGCCTTTTAAACCATGCTCAATGC AATACAATCAATCATCCAATCCCATCTATTTTTTTAGAACACCGCAGGAGAGCTGCAAGTCATT GCATTAAGAAGAAATAAAAAGGGGTGACCACGAGGTCAGCCCAAATTACAAGGATGGTTAGGCC ATGAGCACAGCAGCACACAATCTCTCCTTCCTACACTTAAATTTTGTCCTTCTCCAACAGTTTC CAATAATAGCTTCCTAAATGATTTTGCATTGGGAACCCCAAACTATTATTAATTAATCATTTTT AATAGTTTCTGTCTCTTACGCTTTCTCATCTTGAACCGTTTATTTCCACAATTAACGCATGTGT CCGATTTACTCCAATCTCTCCCAATAAAAATGCCGAACGGGGAGCGGATACGGAGTTCCTCTCA GCTGCAGAAACTTAAAAGTTGGAAAGGATATTTGGCATCTTTTTATTTTTAAAGAGCTCTTTTA CCAAACTGTTGGAGTGCACTTTTTTCCCTTTTTGCTAAAATATTAAAATTGGGAGTTGTTTTAC AAAACCCGTGGAGATGCTCTAGTACATAAAAATTGGTCCCACAGCATACCCGCCTGCAATTCAT AGTGCCAACATAGAAAAATAGATTGCCTTTTCTAGGAACCAGCAGTGTGGGGTATGTGTCGGTT CTTGTGGGTGTTTGAGTTCTTGTCGCATTTTTCTTTTTGATATAATGATATGCAGCTCTTCTGC ATGTTCGAGAAAACTAGATTGCTAAATACAAATGATTAACCCAGGTAGCAGCTTCCTTGAAAAC ACAATGAATGTAGAAGAGACGGTTTCATCCACAGGAAAATTTGAAATAAATTTTGTTCCCATGG TTGCAGGAACACAGGTAAAATTAATATGTAGGAAGTAGAATGCAAGAGGTGCCACAAAACATAG AATTAGATAGTAGATACTAGAGTGATTTGTTCAAGATGCCAAAGCATTGAAACCCTAAATAAAA AATAGAATCTCACCGTTCTTGCCGGTGCATTGACACCCATTGCAAATGTCTCAGTGGAAAACAG TAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.097603001

Conservation Information
Conserved circRNAs	NA
PMCS	0.097603001

			
						 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 Zm00001d015314_circ_g.1

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