Plant Circular RNA Database

Detail information of Zm00001d013444_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d013444_circ_g.2
					
						ID in PlantcircBase
						zma_circ_008396
					
						Alias
						zma_circ_0001856
					
						Organism
						
							Zea mays						
					
						Position
						
							chr5: 11744364-11746795  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d013444						
					
						Parent gene annotation
						
							Protein CASP
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, root
					
						Exon boundary  
						
							Yes-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-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
						Zm00001d013444_T004:2
Zm00001d013444_T002:6
Zm00001d013444_T005:6
Zm00001d013444_T001:6
Zm00001d013444_T007:2
Zm00001d013444_T008:6
Zm00001d013444_T003:6
Zm00001d013444_T006:6

General Information
CircRNA Name	Zm00001d013444_circ_g.2
ID in PlantcircBase	zma_circ_008396
Alias	zma_circ_0001856
Organism	Zea mays
Position	chr5: 11744364-11746795 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d013444
Parent gene annotation	Protein CASP
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, root
Exon boundary	Yes-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-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	Zm00001d013444_T004:2 Zm00001d013444_T002:6 Zm00001d013444_T005:6 Zm00001d013444_T001:6 Zm00001d013444_T007:2 Zm00001d013444_T008:6 Zm00001d013444_T003:6 Zm00001d013444_T006:6

			
						 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  
						
							GCTGGTTCTTCAAGTGTGCAGCTTCAGCACGGTATTCTTCAAGCTCTAGTTTCATCTTACGGTT
CTCAGTCTCCAGTTCAGACAATTTCTGGTCTTGATCctgttcagtgagtaaagtagtcaacttc
ttaagctcgttcacatgcatttctctctcacttgataaagtactttcaatgttgcgaagttctg
cattcaac

									
								

					

						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
						
							CTGTTCAGTGAGTAAAGTAGTCAACTTCTTAAGCTCGTTCACATGCATTTCTCTCTCACTTGAT
AAAGTACTTTCAATGTTGCGAAGTTCTGCATTCAACTCCGAAATAATCTTCTCCTTGGCGTTCA
AGGAACTCTCAAGTATATCACTTGATTCCAAATAGTCACTGCAGAATTATGTAGTTCGCAAGCT
CCAATTAATTTTAAACAGACATTGAAGCCCACTGCTAAAGTGCAGCACTAGCGCACTACTGCAA
TTATGTATCGTACACAGGATGAGTCTCTGTGTGTGGGGGGGGGGGGGGGGGGGGGAGGGGGGTT
GCAAACTGACCTACTTTTGCTTGCATCCTCATTAGTTGTCTGCAATTGTGAACGCAGATCCCCC
TGTAGTCAAGTAAAAAAGAATAGGAAAAGTTATCTTGGGCCATGCACTGAGCAAAACAATAGTT
TTACACATTTGAAGTTATCCACAATTTGATGCTAACATAATGAATAAGGAAAGGTGAAACGTTA
ACGCGGTACCACTACATAGCATTATTTCTCAGAAAAATGTGGTTAGTGTTTGACACTAAACTTT
CAATATAAGGTAACACTATTTAGTCCCTGAATGATTGAATCATAGTTTAGTTAATTTGGCCCTG
ACTCTTAAGGATGCAGATCATCAGGAAAGATTTGGTACAGTTTACTCCAAGTTCAAATCATATT
CCAAAATGTCCTATCCTCATACCAACAATGAGTATGTGGGAACAAGCTCCTCTTGCTTGCGTGC
CACGGAAACATAGATTTTATACATGATTCTGATAGACAAATTTCTACAGAAACTGGAAAAAATA
AAGGACAGAAATGGCCACCAAAAAAACTGACACCAGTAAGTATGTTAAACCATTCACACATGAC
TGGTGGTAAAAAATATTGTAACATGTTGGACATGTTAAGCAGTCAGAACTCAGAAGCATTAAAC
TGGAATTTCAAATCACAAGGCTACCTTTTCCCTCTCAAGACTGACTAATCGTGCTTGAGCCCTT
TCAACTTCATCCATCAGAAGGCTGACTTCAACCTCCTTTGCAGCTCGATCCTCCTCTGGGGAAA
AAAATGAAATGCTTCAATTCACTATAACCTTTAAAATATAAGTCACAAAGATGATCATGATCAC
ACTGGTTGGAAAGAGACCTGATTGAGTGCGAAGCTCAAACAATTGGCTTTGCGCCGATTCATGT
AGCTTTTGCATATTCTTTACACTTTCTGTAGCTTGCCTTAGTTGGTCCTGCAATGACCGTTCCC
TACAAGTATGGCAAGCCGAAGGTCAAAATATACAGTATGAGTCATGGTACATGAATTAGCCTTT
GATGTCAGGCAAGAATTCTATATGGCAGTTCAGGTGATAACAGACTAACACTCTAACAGAGCGA
TTTTTTTCATAGATGTAGTATAGCCTCTTCTACTACCTTCGAAATACATGTCATTCTACAGTTT
CTAGGGAAATTTAGCCAAATTTCCAATCTTACCCCTACTTAATTTCATAATTTAACTAAATTAT
CCACATGCATATCTCGTTTCCCGTGCTGTTGCACGTAAGCAGTCATGCACGCACCAATTAGAAG
ACACAACTGGGTAATAATAAAATGAGAGTAAAATGGCCGTATGATTGAACTTCTTAGTTCTTGT
GGCCAACTCTAAAACAGCACCTGGTTTGATCCAAAGGTAGTACTACAGATGATTTTGCATACCT
ATCTTTCAGGGCTTCTAGAGTTTTCTGACTATCCTCAGCCATGCTTCGCTGCTTCATTTCAACC
ATCTCCCTTACTTTCTCCTCCATCTAAAATGATACAAATGGTAATAAAGCGAAAAGGTACAAAG
CTTGAGAGATCGAATTGGTTATTATAATTTATCTGGAACGCTTTTTTATATAAGTTTGGACCCC
TGTTGTTTATAAAAATTTTGACTCCTGACTGCATGCTTGCTATTGGTAGATAAAGGAATCTTCT
ACCCTCTATACTACATTTAGACAACACTCACATAGAAACATATTTCTACAAAATAAAATGTAGA
TAATAATGTGATGCTCAAAAAAAATTACAACACATTAAAATGGGTAGAGATCTAGTATTTTAAT
TGGAATTATTATATGGATAATGTCAACTCTTATGATTGACAAAGAAATAGGACAAGAAGAAACT
CTTATTTGTAACACCAATGTCATATAAAAGTAAAAAAAACAAAGACATGTACGATAAATTAATA
GTAGAGCATATAACTAAATGGTGACAGAAGTACAGAAAAGACCTGCTGTTCCAGTTGGCGATTA
CGCTCTTCAAGTCGCCTAATTGTTGCCTGCTGGTTCTTCAAGTGTGCAGCTTCAGCACGGTATT
CTTCAAGCTCTAGTTTCATCTTACGGTTCTCAGTCTCCAGTTCAGACAATTTCTGGTCTTGATC
						
					

			
		

Sequences
Splice junction sequence	GCTGGTTCTTCAAGTGTGCAGCTTCAGCACGGTATTCTTCAAGCTCTAGTTTCATCTTACGGTT CTCAGTCTCCAGTTCAGACAATTTCTGGTCTTGATCctgttcagtgagtaaagtagtcaacttc ttaagctcgttcacatgcatttctctctcacttgataaagtactttcaatgttgcgaagttctg cattcaac
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	CTGTTCAGTGAGTAAAGTAGTCAACTTCTTAAGCTCGTTCACATGCATTTCTCTCTCACTTGAT AAAGTACTTTCAATGTTGCGAAGTTCTGCATTCAACTCCGAAATAATCTTCTCCTTGGCGTTCA AGGAACTCTCAAGTATATCACTTGATTCCAAATAGTCACTGCAGAATTATGTAGTTCGCAAGCT CCAATTAATTTTAAACAGACATTGAAGCCCACTGCTAAAGTGCAGCACTAGCGCACTACTGCAA TTATGTATCGTACACAGGATGAGTCTCTGTGTGTGGGGGGGGGGGGGGGGGGGGGAGGGGGGTT GCAAACTGACCTACTTTTGCTTGCATCCTCATTAGTTGTCTGCAATTGTGAACGCAGATCCCCC TGTAGTCAAGTAAAAAAGAATAGGAAAAGTTATCTTGGGCCATGCACTGAGCAAAACAATAGTT TTACACATTTGAAGTTATCCACAATTTGATGCTAACATAATGAATAAGGAAAGGTGAAACGTTA ACGCGGTACCACTACATAGCATTATTTCTCAGAAAAATGTGGTTAGTGTTTGACACTAAACTTT CAATATAAGGTAACACTATTTAGTCCCTGAATGATTGAATCATAGTTTAGTTAATTTGGCCCTG ACTCTTAAGGATGCAGATCATCAGGAAAGATTTGGTACAGTTTACTCCAAGTTCAAATCATATT CCAAAATGTCCTATCCTCATACCAACAATGAGTATGTGGGAACAAGCTCCTCTTGCTTGCGTGC CACGGAAACATAGATTTTATACATGATTCTGATAGACAAATTTCTACAGAAACTGGAAAAAATA AAGGACAGAAATGGCCACCAAAAAAACTGACACCAGTAAGTATGTTAAACCATTCACACATGAC TGGTGGTAAAAAATATTGTAACATGTTGGACATGTTAAGCAGTCAGAACTCAGAAGCATTAAAC TGGAATTTCAAATCACAAGGCTACCTTTTCCCTCTCAAGACTGACTAATCGTGCTTGAGCCCTT TCAACTTCATCCATCAGAAGGCTGACTTCAACCTCCTTTGCAGCTCGATCCTCCTCTGGGGAAA AAAATGAAATGCTTCAATTCACTATAACCTTTAAAATATAAGTCACAAAGATGATCATGATCAC ACTGGTTGGAAAGAGACCTGATTGAGTGCGAAGCTCAAACAATTGGCTTTGCGCCGATTCATGT AGCTTTTGCATATTCTTTACACTTTCTGTAGCTTGCCTTAGTTGGTCCTGCAATGACCGTTCCC TACAAGTATGGCAAGCCGAAGGTCAAAATATACAGTATGAGTCATGGTACATGAATTAGCCTTT GATGTCAGGCAAGAATTCTATATGGCAGTTCAGGTGATAACAGACTAACACTCTAACAGAGCGA TTTTTTTCATAGATGTAGTATAGCCTCTTCTACTACCTTCGAAATACATGTCATTCTACAGTTT CTAGGGAAATTTAGCCAAATTTCCAATCTTACCCCTACTTAATTTCATAATTTAACTAAATTAT CCACATGCATATCTCGTTTCCCGTGCTGTTGCACGTAAGCAGTCATGCACGCACCAATTAGAAG ACACAACTGGGTAATAATAAAATGAGAGTAAAATGGCCGTATGATTGAACTTCTTAGTTCTTGT GGCCAACTCTAAAACAGCACCTGGTTTGATCCAAAGGTAGTACTACAGATGATTTTGCATACCT ATCTTTCAGGGCTTCTAGAGTTTTCTGACTATCCTCAGCCATGCTTCGCTGCTTCATTTCAACC ATCTCCCTTACTTTCTCCTCCATCTAAAATGATACAAATGGTAATAAAGCGAAAAGGTACAAAG CTTGAGAGATCGAATTGGTTATTATAATTTATCTGGAACGCTTTTTTATATAAGTTTGGACCCC TGTTGTTTATAAAAATTTTGACTCCTGACTGCATGCTTGCTATTGGTAGATAAAGGAATCTTCT ACCCTCTATACTACATTTAGACAACACTCACATAGAAACATATTTCTACAAAATAAAATGTAGA TAATAATGTGATGCTCAAAAAAAATTACAACACATTAAAATGGGTAGAGATCTAGTATTTTAAT TGGAATTATTATATGGATAATGTCAACTCTTATGATTGACAAAGAAATAGGACAAGAAGAAACT CTTATTTGTAACACCAATGTCATATAAAAGTAAAAAAAACAAAGACATGTACGATAAATTAATA GTAGAGCATATAACTAAATGGTGACAGAAGTACAGAAAAGACCTGCTGTTCCAGTTGGCGATTA CGCTCTTCAAGTCGCCTAATTGTTGCCTGCTGGTTCTTCAAGTGTGCAGCTTCAGCACGGTATT CTTCAAGCTCTAGTTTCATCTTACGGTTCTCAGTCTCCAGTTCAGACAATTTCTGGTCTTGATC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.030533484

Conservation Information
Conserved circRNAs	NA
PMCS	0.030533484

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							11746752-11744366(-)
						
						Potential amino acid sequence
						
							MKLELEEYRAEAAHLKNQQATIRRLEERNRQLEQQMEEKVREMVEMKQRSMAEDSQKTLEALKD
RERSLQDQLRQATESVKNMQKLHESAQSQLFELRTQSEEDRAAKEVEVSLLMDEVERAQARLVS
LEREKGDLRSQLQTTNEDASKSSDYLESSDILESSLNAKEKIISELNAELRNIESTLSSEREMH
VNELKKLTTLLTEQDQDQKLSELETENRKMKLELEEYRAEAAHLKNQQATIRRLEERNRQLEQQ
MEEKVREMVEMKQRSMAEDSQKTLEALKDRERSLQDQLRQATESVKNMQKLHESAQSQLFELRT
QSEEDRAAKEVEVSLLMDEVERAQARLVSLEREKGDLRSQLQTTNEDASKSSDYLESSDILESS
LNAKEKIISELNAELRNIESTLSSEREMHVNELKKLTTLLTEQDQDQKLSELETENRKMKLELE
EYRAEAAHLKNQQATIRRLEERNRQLEQQMEEKVREMVEMKQRSMAEDSQKTLEALKDRERSLQ
DQLRQATESVKNMQKLHESAQSQLFELRTQSEEDRAAKEVEVSLLMDEVERAQARLVSLEREKG
DLRSQLQTTNEDASKSSDYLESSDILESSLNAKEKIISELNAELRNIESTLSSEREMHVNELKK
LTTLLTEQDQDQKLSELETENRKMKLELEEYRAEAAHLKNQQATIRRLEERNRQLEQQMEEKVR
EMVEMKQRSMAEDSQKTLEALKDRERSLQDQLRQATESVKNMQKLHESAQSQLFELRTQSEEDR
AAKEVEVSLLMDEVERAQARLVSLEREKGDLRSQLQTTNEDASKSSDYLESSDILESSLNAKEK
IISELNAELRNIESTLSSEREMHVNELKKLTTLLTEQ(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	11746752-11744366(-)
Potential amino acid sequence	MKLELEEYRAEAAHLKNQQATIRRLEERNRQLEQQMEEKVREMVEMKQRSMAEDSQKTLEALKD RERSLQDQLRQATESVKNMQKLHESAQSQLFELRTQSEEDRAAKEVEVSLLMDEVERAQARLVS LEREKGDLRSQLQTTNEDASKSSDYLESSDILESSLNAKEKIISELNAELRNIESTLSSEREMH VNELKKLTTLLTEQDQDQKLSELETENRKMKLELEEYRAEAAHLKNQQATIRRLEERNRQLEQQ MEEKVREMVEMKQRSMAEDSQKTLEALKDRERSLQDQLRQATESVKNMQKLHESAQSQLFELRT QSEEDRAAKEVEVSLLMDEVERAQARLVSLEREKGDLRSQLQTTNEDASKSSDYLESSDILESS LNAKEKIISELNAELRNIESTLSSEREMHVNELKKLTTLLTEQDQDQKLSELETENRKMKLELE EYRAEAAHLKNQQATIRRLEERNRQLEQQMEEKVREMVEMKQRSMAEDSQKTLEALKDRERSLQ DQLRQATESVKNMQKLHESAQSQLFELRTQSEEDRAAKEVEVSLLMDEVERAQARLVSLEREKG DLRSQLQTTNEDASKSSDYLESSDILESSLNAKEKIISELNAELRNIESTLSSEREMHVNELKK LTTLLTEQDQDQKLSELETENRKMKLELEEYRAEAAHLKNQQATIRRLEERNRQLEQQMEEKVR EMVEMKQRSMAEDSQKTLEALKDRERSLQDQLRQATESVKNMQKLHESAQSQLFELRTQSEEDR AAKEVEVSLLMDEVERAQARLVSLEREKGDLRSQLQTTNEDASKSSDYLESSDILESSLNAKEK IISELNAELRNIESTLSSEREMHVNELKKLTTLLTEQ(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d013444_circ_g.2

Address

Any questions?

Supported by