Plant Circular RNA Database

Detail information of Zm00001d014344_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d014344_circ_g.2
					
						ID in PlantcircBase
						zma_circ_001962
					
						Alias
						circ2100
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 42056973-42059628  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							ue-circRNA							
									
						Identification method
						CIRCexplor2
					
						Parent gene
						
							Zm00001d014344						
					
						Parent gene annotation
						
							P-loop containing nucleoside triphosphate hydrolases superfamily
 protein
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d014344_circ_g.3 Zm00001d014344_circ_g.4 						
					
						Support reads
						3
					
						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
						Zm00001d014344_T022:4
Zm00001d014344_T002:4
Zm00001d014344_T035:5
Zm00001d014344_T007:4
Zm00001d014344_T030:4
Zm00001d014344_T053:5
Zm00001d014344_T016:4
Zm00001d014344_T020:4
Zm00001d014344_T046:3
Zm00001d014344_T009:4
Zm00001d014344_T004:4
Zm00001d014344_T032:4
Zm00001d014344_T012:4
Zm00001d014344_T054:6
Zm00001d014344_T006:4
Zm00001d014344_T014:4
Zm00001d014344_T024:3
Zm00001d014344_T061:5
Zm00001d014344_T018:4
Zm00001d014344_T042:4
Zm00001d014344_T034:4
Zm00001d014344_T003:4
Zm00001d014344_T008:5
Zm00001d014344_T005:4
Zm00001d014344_T048:3
Zm00001d014344_T019:3
Zm00001d014344_T064:4
Zm00001d014344_T041:4
Zm00001d014344_T027:4
Zm00001d014344_T063:4
Zm00001d014344_T037:4
Zm00001d014344_T001:3
Zm00001d014344_T036:5
Zm00001d014344_T025:4
Zm00001d014344_T059:5
Zm00001d014344_T029:3
Zm00001d014344_T023:4
Zm00001d014344_T038:4
Zm00001d014344_T021:4

General Information
CircRNA Name	Zm00001d014344_circ_g.2
ID in PlantcircBase	zma_circ_001962
Alias	circ2100
Organism	Zea mays
Position	chr5: 42056973-42059628 JBrowse»
Reference genome	AGPv4.38
Type	ue-circRNA
Identification method	CIRCexplor2
Parent gene	Zm00001d014344
Parent gene annotation	P-loop containing nucleoside triphosphate hydrolases superfamily protein
Parent gene strand	-
Alternative splicing	Zm00001d014344_circ_g.3 Zm00001d014344_circ_g.4
Support reads	3
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	Zm00001d014344_T022:4 Zm00001d014344_T002:4 Zm00001d014344_T035:5 Zm00001d014344_T007:4 Zm00001d014344_T030:4 Zm00001d014344_T053:5 Zm00001d014344_T016:4 Zm00001d014344_T020:4 Zm00001d014344_T046:3 Zm00001d014344_T009:4 Zm00001d014344_T004:4 Zm00001d014344_T032:4 Zm00001d014344_T012:4 Zm00001d014344_T054:6 Zm00001d014344_T006:4 Zm00001d014344_T014:4 Zm00001d014344_T024:3 Zm00001d014344_T061:5 Zm00001d014344_T018:4 Zm00001d014344_T042:4 Zm00001d014344_T034:4 Zm00001d014344_T003:4 Zm00001d014344_T008:5 Zm00001d014344_T005:4 Zm00001d014344_T048:3 Zm00001d014344_T019:3 Zm00001d014344_T064:4 Zm00001d014344_T041:4 Zm00001d014344_T027:4 Zm00001d014344_T063:4 Zm00001d014344_T037:4 Zm00001d014344_T001:3 Zm00001d014344_T036:5 Zm00001d014344_T025:4 Zm00001d014344_T059:5 Zm00001d014344_T029:3 Zm00001d014344_T023:4 Zm00001d014344_T038:4 Zm00001d014344_T021:4

			
						 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  
						
							AGATTGAATCTTTCAACTAGTGGAACCAGTAGCAATTTCCGGGAATATTAAGGCACCCAATGGA
GGGAAGTTATTGTTGCCTTTCTGTCGGGACAAGCATcctgttagaatcaaatgaatcaccaaga
taaaaatggataatagctccaataggatcacgtgtatcaataggcatgtggcgcctaacagtac
caacaagc

									
								

					

						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
						
							CCTGTTAGAATCAAATGAATCACCAAGATAAAAATGGATAATAGCTCCAATAGGATCACGTGTA
TCAATAGGCATGTGGCGCCTAACAGTACCAACAAGCCGGCCACATTCTGATACAGCATCCTCAT
TTGAACCCATAGCTCTCCTACTAGATCGGCCTGATTGTGCAGCTGAAAATACCAACACAACAGC
TAACTAAGAAAAACGTCTATCGACAGTTATTGCAAATAAAAAACTAAGACAATTCAGTAAATAT
ACCTGAACCAGGCCGTGGAAACGATAGAATAGCAACATCGCCTTCTTTGAAATTCCATTTTTGT
TCATGGATCGGTAGAACGACAACATCGTACCATCCTGGATGCATTAATATTCAGGTTACTGCAC
TGATTGGGGTATTCAACTTCGTGTTCTATAAAAGCGCAACAAACCAATCCCACATACCTCTTTC
ACGTCTATCGACAGTTTTTACTCGGACCGCTACATGTGCATCCCTTCCCACAGCCTCAAGACTC
TCCTCATACGAACTATAAAGCTGAGCTCTGCATTCCTCAAAAAGCAAAGGCTCAAAAACTCTAA
TGTACTCCTCAGCAGATTCAAAGCTTCCAGGAACACACTCAAGTTCTGCCTCCTCTGTTCAGAT
AAAGAAATATATGTTATTTATATGCCAAATTACAACCACACACACATGCAAACACAATAGTGAT
TTTACAACTTCTGGAATGGAACAAGATAACATCAAATATGTGATCATTAGTGAGAAACACAATG
ACCAAAATATCAACAATCTTCAGTACAGAGCAAGTGGCGAAGTGTAACATGGAGCTGCCACATT
TTTAAGATATCATTTTAAAATACATGGACAGGGGTATTACCTCCCTGCGTCCAAGTCCTGGTCC
TACTTGTTTTATAAGCTATTACTTAACGAGGGACACTAAAACATGGGGGCAGTAATTGTTAAAA
GGCATGACCTAAACAAATTCCACAAATCTCGCATGCATGTAATAAAATGTATATTTATAACAAA
TTCTAAATTTTCCAGTAAGGTAAAAATCATATACAACCAAATCAAACATGACAATAAAGAAGCA
ACCTGGATTGTGCCAGAACTTATCGTTTGTCACCTCCCTTATAAGTCGCTCAACAGATGAATCC
TGTACATTGTTTACAAAAGTTTGCTTTTTGGAAATAATAGACCTTTTGCTGGCTGGCTTCTGAT
CAGCATTGTTTGTTCCTGTTAGAAATGTTCTTTGGGAAGAGAATGATCGGCTTTTTGGTTGCTT
CAAGTCCATGGATTGCTTGAATGAAGCTTGTCTTTGGACAGGCTGCTGATACCCATCTGAGGCT
GGATCTTCTGCATTCATTTTCTTTGACCGGCCCTGGGTACCCAACTCAGCATCACCATTGGATT
CAGTGTATTGGTCACTAGGATCTGCAGAATTGCTTCGCTCTGATCCCATCATTTCAGGTTGTCT
CTGATCCCTGATTGCTTGCTGACTTTGTTTTTCTGCAGCCTTTTCACCAGCACCACGAGAAGCT
TCCTTCACTGTACGTGTAACAATCGGTGCTGGAAAAGATGACTGCCTCCTGGGTGTTGATGTCT
TCATTGTACCAGCTTGTTTCGCATCCTCTACATTGATGAAGACAGTTTGCCTAGCTCGTTTTTT
GCCTAACATGGCCTCTTTGTGTTCATTTAACTTGGGCCTCTTTGCGGGGTTGCTCGCAAACCTC
AAAGCATAATTGGCTTCGACTCCTTTAACATCCCTTGACCTGTTGCAAAGATCTAGATCATCAC
CAGGCTGATTTCCTTTACATTCAGAATTTTGCATGTTATCTGATCCTGTGGACCCGTGAACCCG
ATCTTCAGATGCATCAACCTTTTCAGCATCACTACATTCCGCAGCAGTATCATCTTTAGTCACA
TCACCAGATTTAATAAGATGGGGCTCGCTCTCTTGGGATTCTTTCTTCAAATTAGTGCTTGCGG
TACCAGTGAACTCATCTTTGTTGCTACTCCCTGCATTTTCAGAAATGCCATCTGCATCAGACCA
TTCTCCTTCTTCTCTTTCAATGGCTTGTGACACCTTATTGCAAGTCTCAACCTTTGAAGCAGCA
CTGTCGGTGATCTGATTGTTTACCATGGACAGTGATGCTATACTAGAATTATGATTATCTTCCA
CCTTCATCGGCTCCTTTGTATTGTTTGAATCTTTGCTGTTCCTCACAAAAGGCTGAAATCCAGA
ACCAATGGATGCATGCTTAAAGGCATTATTGTTCAATATCCCCTGCGACTGTGATCCTTCCCCT
CGCTGAAACAAGGTTGGGGCATATGTCGTCGGAACACGAAGGGATTTCTGAGGTTGTGACACGA
CAACAGCAGCTTCTTGTAACGCCACAACAACAGCTTCTTGTGGTACGACAGCAGCAGATTCTTT
TGGCACAACAGCAGCAGATTCTTTTGGCACGACAGCAGCTGCTGCTTCTTCAACTTCTGCTGGG
AGTTCGTTAAGGTCAAATAACATCCTTCCTCGAGAACCCATGTCATGTGTAGATGCATATAGAT
TGAATCTTTCAACTAGTGGAACCAGTAGCAATTTCCGGGAATATTAAGGCACCCAATGGAGGGA
AGTTATTGTTGCCTTTCTGTCGGGACAAGCAT
						
					

			
		

Sequences
Splice junction sequence	AGATTGAATCTTTCAACTAGTGGAACCAGTAGCAATTTCCGGGAATATTAAGGCACCCAATGGA GGGAAGTTATTGTTGCCTTTCTGTCGGGACAAGCATcctgttagaatcaaatgaatcaccaaga taaaaatggataatagctccaataggatcacgtgtatcaataggcatgtggcgcctaacagtac caacaagc
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	CCTGTTAGAATCAAATGAATCACCAAGATAAAAATGGATAATAGCTCCAATAGGATCACGTGTA TCAATAGGCATGTGGCGCCTAACAGTACCAACAAGCCGGCCACATTCTGATACAGCATCCTCAT TTGAACCCATAGCTCTCCTACTAGATCGGCCTGATTGTGCAGCTGAAAATACCAACACAACAGC TAACTAAGAAAAACGTCTATCGACAGTTATTGCAAATAAAAAACTAAGACAATTCAGTAAATAT ACCTGAACCAGGCCGTGGAAACGATAGAATAGCAACATCGCCTTCTTTGAAATTCCATTTTTGT TCATGGATCGGTAGAACGACAACATCGTACCATCCTGGATGCATTAATATTCAGGTTACTGCAC TGATTGGGGTATTCAACTTCGTGTTCTATAAAAGCGCAACAAACCAATCCCACATACCTCTTTC ACGTCTATCGACAGTTTTTACTCGGACCGCTACATGTGCATCCCTTCCCACAGCCTCAAGACTC TCCTCATACGAACTATAAAGCTGAGCTCTGCATTCCTCAAAAAGCAAAGGCTCAAAAACTCTAA TGTACTCCTCAGCAGATTCAAAGCTTCCAGGAACACACTCAAGTTCTGCCTCCTCTGTTCAGAT AAAGAAATATATGTTATTTATATGCCAAATTACAACCACACACACATGCAAACACAATAGTGAT TTTACAACTTCTGGAATGGAACAAGATAACATCAAATATGTGATCATTAGTGAGAAACACAATG ACCAAAATATCAACAATCTTCAGTACAGAGCAAGTGGCGAAGTGTAACATGGAGCTGCCACATT TTTAAGATATCATTTTAAAATACATGGACAGGGGTATTACCTCCCTGCGTCCAAGTCCTGGTCC TACTTGTTTTATAAGCTATTACTTAACGAGGGACACTAAAACATGGGGGCAGTAATTGTTAAAA GGCATGACCTAAACAAATTCCACAAATCTCGCATGCATGTAATAAAATGTATATTTATAACAAA TTCTAAATTTTCCAGTAAGGTAAAAATCATATACAACCAAATCAAACATGACAATAAAGAAGCA ACCTGGATTGTGCCAGAACTTATCGTTTGTCACCTCCCTTATAAGTCGCTCAACAGATGAATCC TGTACATTGTTTACAAAAGTTTGCTTTTTGGAAATAATAGACCTTTTGCTGGCTGGCTTCTGAT CAGCATTGTTTGTTCCTGTTAGAAATGTTCTTTGGGAAGAGAATGATCGGCTTTTTGGTTGCTT CAAGTCCATGGATTGCTTGAATGAAGCTTGTCTTTGGACAGGCTGCTGATACCCATCTGAGGCT GGATCTTCTGCATTCATTTTCTTTGACCGGCCCTGGGTACCCAACTCAGCATCACCATTGGATT CAGTGTATTGGTCACTAGGATCTGCAGAATTGCTTCGCTCTGATCCCATCATTTCAGGTTGTCT CTGATCCCTGATTGCTTGCTGACTTTGTTTTTCTGCAGCCTTTTCACCAGCACCACGAGAAGCT TCCTTCACTGTACGTGTAACAATCGGTGCTGGAAAAGATGACTGCCTCCTGGGTGTTGATGTCT TCATTGTACCAGCTTGTTTCGCATCCTCTACATTGATGAAGACAGTTTGCCTAGCTCGTTTTTT GCCTAACATGGCCTCTTTGTGTTCATTTAACTTGGGCCTCTTTGCGGGGTTGCTCGCAAACCTC AAAGCATAATTGGCTTCGACTCCTTTAACATCCCTTGACCTGTTGCAAAGATCTAGATCATCAC CAGGCTGATTTCCTTTACATTCAGAATTTTGCATGTTATCTGATCCTGTGGACCCGTGAACCCG ATCTTCAGATGCATCAACCTTTTCAGCATCACTACATTCCGCAGCAGTATCATCTTTAGTCACA TCACCAGATTTAATAAGATGGGGCTCGCTCTCTTGGGATTCTTTCTTCAAATTAGTGCTTGCGG TACCAGTGAACTCATCTTTGTTGCTACTCCCTGCATTTTCAGAAATGCCATCTGCATCAGACCA TTCTCCTTCTTCTCTTTCAATGGCTTGTGACACCTTATTGCAAGTCTCAACCTTTGAAGCAGCA CTGTCGGTGATCTGATTGTTTACCATGGACAGTGATGCTATACTAGAATTATGATTATCTTCCA CCTTCATCGGCTCCTTTGTATTGTTTGAATCTTTGCTGTTCCTCACAAAAGGCTGAAATCCAGA ACCAATGGATGCATGCTTAAAGGCATTATTGTTCAATATCCCCTGCGACTGTGATCCTTCCCCT CGCTGAAACAAGGTTGGGGCATATGTCGTCGGAACACGAAGGGATTTCTGAGGTTGTGACACGA CAACAGCAGCTTCTTGTAACGCCACAACAACAGCTTCTTGTGGTACGACAGCAGCAGATTCTTT TGGCACAACAGCAGCAGATTCTTTTGGCACGACAGCAGCTGCTGCTTCTTCAACTTCTGCTGGG AGTTCGTTAAGGTCAAATAACATCCTTCCTCGAGAACCCATGTCATGTGTAGATGCATATAGAT TGAATCTTTCAACTAGTGGAACCAGTAGCAATTTCCGGGAATATTAAGGCACCCAATGGAGGGA AGTTATTGTTGCCTTTCTGTCGGGACAAGCAT

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.024096247

Conservation Information
Conserved circRNAs	NA
PMCS	0.024096247

			
						 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 Zm00001d014344_circ_g.2

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