Plant Circular RNA Database

Detail information of Zm00001d029608_circ_g.8

			
						 General Information
					
						CircRNA Name
						Zm00001d029608_circ_g.8
					
						ID in PlantcircBase
						zma_circ_006566
					
						Alias
						Zm01circ00080, zma_circ_0000220
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 79108386-79113874  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2, find_circ
					
						Parent gene
						
							Zm00001d029608						
					
						Parent gene annotation
						
							Mechanosensitive ion channel protein 3 chloroplastic
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d029608_circ_g.1 Zm00001d029608_circ_g.2 Zm00001d029608_circ_g.3 Zm00001d029608_circ_g.4 Zm00001d029608_circ_g.5 Zm00001d029608_circ_g.6 Zm00001d029608_circ_g.7 Zm00001d029608_circ_g.9 Zm00001d029608_circ_g.10 Zm00001d029608_circ_g.11 						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm, 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
						Zm00001d029608_T001:6
Zm00001d029608_T013:7
Zm00001d029608_T004:5
Zm00001d029608_T011:7
Zm00001d029608_T008:7
Zm00001d029608_T009:6
Zm00001d029608_T015:6
Zm00001d029608_T005:6
Zm00001d029608_T014:7
Zm00001d029608_T007:7
Zm00001d029608_T006:1
Zm00001d029608_T003:6
Zm00001d029608_T002:6

General Information
CircRNA Name	Zm00001d029608_circ_g.8
ID in PlantcircBase	zma_circ_006566
Alias	Zm01circ00080, zma_circ_0000220
Organism	Zea mays
Position	chr1: 79108386-79113874 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2, find_circ
Parent gene	Zm00001d029608
Parent gene annotation	Mechanosensitive ion channel protein 3 chloroplastic
Parent gene strand	-
Alternative splicing	Zm00001d029608_circ_g.1 Zm00001d029608_circ_g.2 Zm00001d029608_circ_g.3 Zm00001d029608_circ_g.4 Zm00001d029608_circ_g.5 Zm00001d029608_circ_g.6 Zm00001d029608_circ_g.7 Zm00001d029608_circ_g.9 Zm00001d029608_circ_g.10 Zm00001d029608_circ_g.11
Support reads	NA
Tissues	leaf, endosperm, 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	Zm00001d029608_T001:6 Zm00001d029608_T013:7 Zm00001d029608_T004:5 Zm00001d029608_T011:7 Zm00001d029608_T008:7 Zm00001d029608_T009:6 Zm00001d029608_T015:6 Zm00001d029608_T005:6 Zm00001d029608_T014:7 Zm00001d029608_T007:7 Zm00001d029608_T006:1 Zm00001d029608_T003:6 Zm00001d029608_T002:6

			
						 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  
						
							AACTGCCATCTCAACCAAAACTCAAATCCAATGAAATTTACATCCACTGGATGCAGTTTCTTAT
CAGCCACTGATGTGTAATATGTGCTAGATTGCAACCatttcttgtatcattgggattgcgcatg
tccataagaaacttttgtacctgctgaatcaagctaaaaagaacaaaaactatcttagtgttaa
caaaactt

									
								

					

						Assembled circRNA sequence  
						
							Yes
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
						
							Transcript length: 3020
Transcript exons: 79108386-79110802,79111177-79111271,79111397-79111517,79
112628-79112785,79113563-79113622,79113706-79113874
ATTTCTTGTATCATTGGGATTGCGCATGTCCATAAGAAACTTTTGTACCTGCTGAATCAAGCTA
AAAAGAACAAAAACTATCTTAGTGTTAACAAAACTTAATAAAACAGAACATAATGAAACCAAAT
CAATCATACAAGAGGACAACATAGATATAGACACATTAAAATTCATACAAATCAAGACAGCAAG
GATTACGTGCATGTTTGAGAGTGAAGTATTTTTGCAGCTTCTAGACGATACCATGGTTTTTGGA
AATATCGTAGTATTTTATGTCATAAGATGTTTGGTTGCATTTCTGAAAACTATGTTTTCAAAAT
CATGGTATCCCAGATACCATAGTATTTTTGGAGTATTGGAAACTCCACTCTAACCCAAAGTTTT
CATGGCAACTGGCTAGCTTTTGCCTAATACCATGGTTTACAATGTTGTATCCAAACAATACGGC
CTTGTTTGGAAGTGTAGTATTTTTGCGGTTTCGAAACAATACTATGGTATTTGATGATAGTGTA
GTATTGGTCTATTGGAACTCAAAAGGTGTTTGGTTTGTACAGGCAAAACACAGTTTCAAATACC
ATGGTTTCCCCAAAACCGTGGTATATTTGGAGTTTTCGAAACTCCACTCAGGACCTCAGTTTTC
TTCTCTTTTCTCTACATATACTTTGTTTTTCCAATAGAACCAAACAGATCTCGGTTTTGAGCAA
TACTGTGGTTTTACTGTGGTAAAGTAATACCGTAGTATTTGTGTCATGTACAATTGTAAACTAT
GATATCTCAAAACTACAGTATTTCAAAACTGCATTCCCAAACAGGCCCTACTTCTCATAACCAT
GGTACTTTTGGAGCTGCCAAAACTACGGTATTGTCACGACAATTGCAAAGTATAGTATTGTAAA
ACCATAGCTTTGAGAAACATTGTTACCAAACAGGCCCTAACACATATCTGCACATCTTCCCATT
GTAATACATGAAACACCATTGTACCTTAACTAAGATGGTGTTTGGTTCCCCTAACTAAAGTTTA
GTACGTGTCACATTGGATGTTTGAACACCAATTACGAGTATTAAATATAGTCTAATTACGAAAT
TGATTATATAGATGAAGACTAAACGACAAGACGAATTTATTAAGCTTAATAATTCATGATTAGT
AAATGTTTACTGTAGCATCATATGAGCGAACCATGGACTAATTAGGTTTAATGGATTTGTCTTA
CCGTTTAGTCCTTATTTGTGTAATTAGTTTTGTAATTAGACTATATTTAATACTTCTAACTAGT
GTTCAAAGATCCGATGTGACGGAACTAAAATTTAGTCCTTTTAATCCAAATAGACCTTAATAAT
TCATCTGGATATATTCAACAAAACAAAAAATAATAGTATCACAAATATCACATCCATGATTCCT
AGATATACAATGTTGAAATTAACTTAAAATAGATCACAATGCGATACATAATGTTAGCACGGAA
TGGCACTCACATCTCGGAATACCTTTTGTATGCTTTAAAATTATATAAGTTTTAGCATTCCCCA
TATCTAAGTAGAAAAAAGTTCCAATACATTACTCATCTATTTGTATTTGTATACCACAAACTGA
AGCTAATCTTTGTTTATTCTTGTAATCTCACCAGCTGTATTTCTTTGATATATGCAAAAGAGCC
TCTACCGATGGTTAGGTGGTTTGAGTAGCATTCTTCCGGTCCTGGTTCGACTTTCCATCAGATC
GAAATTCAGGCTAGGGTTAAAAAATTCTCTCATTTATCCCATGCCAAAGCACAAGACTAAGGCA
CATCCCTAGTCATGGTCGTTCTCACATGGGCTATGGTGTTGCTGTGTATGTGGGGCAGGGCCGC
AGGGGTTTCTCCAGCTCTCCACCAACGTGAAAAGGACAAAAGGTACTCTCCTTAATGCAATGCC
TGACCCCCCCCCCCACCAGCGCAGTTCGAGGTTTTTTATTATTTTTTACATACTATCACTAATA
TTTCAATCACCAATATGTAATTAGTTTATCTAGTTGTGCCAGAACTATGCATTGTCATTCAAGC
TACGTAGCCAGCAAACCAACCATTTGTATTTCAAGATGATAGACAAAACTAAAGTTGGGGAGAA
AAGAACCGTCCATGGCCAAAATTGTAATTTGTAATCTCCAACATGTGCTTTTGCAGTTACAGTT
ATCTTGAGTACTACTTGACTGCATAAATGTTGTCATTACCTGTACATAACTTAGATGGGCATGA
TCGAATTAAAGCTACAACTTACAAAAAACAACTGCAGTTTTTCTGAGGATGTAGCATGTGCACC
TTGTGAGAATATATGCAACAGCCAGGACAGTTGATAATGATCTCACAAAAGTTATCAGACGTGT
TTTCACAGCTTGACTTGCTGCTGAAGGCAAGACAACTGGATCCAAACCCCTGCAGATTAGTGTT
GCTCCTGTCCAGAGAAGTAGAGGTTGAAGGTACGACGAAGAAATCAAATATGTAGGACTCTTCT
TCCAGTTGCCTCCATGATCAAAACGGTTTCTAATATCCCGCATTAGAGGCAAAAAACCCCACAG
AGCAAACACAATAATCCCGATTGCAGGGACCACAAGTGAGGTAGCAGGATTTGCAAGTAAAGCA
TCACATGACCTAGTTAGTGCTAATGATGTGTTCTTGACAAGAGGAATTTCCTTCAAAGGAATTG
GCAAGGCAAAAGATCTAAAGCCCAAAGATCTATATCTGCGAGGTGTATAAAGCATGGGCATGCA
GCTACTCTCTAACACATTGCGACCCCAACAGTCTCGCCTATCAGCAACTGAAGGAAACGAGGTG
GATGGCAAGGGAAGAGAACTCCTCATCTCAGAACTCCTAAATTTGTTCCTTTGGCAAAAGATGT
CAGTAGCAGTTACTCTTTGGAACAGCTGAGATGTCAATCCAACTGCCATCTCAACCAAAACTCA
AATCCAATGAAATTTACATCCACTGGATGCAGTTTCTTATCAGCCACTGATGTGTAATATGTGC
TAGATTGCAACC
						
					

						Genomic sequence
						
							TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.						
					

			
		

Sequences
Splice junction sequence	AACTGCCATCTCAACCAAAACTCAAATCCAATGAAATTTACATCCACTGGATGCAGTTTCTTAT CAGCCACTGATGTGTAATATGTGCTAGATTGCAACCatttcttgtatcattgggattgcgcatg tccataagaaacttttgtacctgctgaatcaagctaaaaagaacaaaaactatcttagtgttaa caaaactt
Assembled circRNA sequence	Yes 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	Transcript length: 3020 Transcript exons: 79108386-79110802,79111177-79111271,79111397-79111517,79 112628-79112785,79113563-79113622,79113706-79113874 ATTTCTTGTATCATTGGGATTGCGCATGTCCATAAGAAACTTTTGTACCTGCTGAATCAAGCTA AAAAGAACAAAAACTATCTTAGTGTTAACAAAACTTAATAAAACAGAACATAATGAAACCAAAT CAATCATACAAGAGGACAACATAGATATAGACACATTAAAATTCATACAAATCAAGACAGCAAG GATTACGTGCATGTTTGAGAGTGAAGTATTTTTGCAGCTTCTAGACGATACCATGGTTTTTGGA AATATCGTAGTATTTTATGTCATAAGATGTTTGGTTGCATTTCTGAAAACTATGTTTTCAAAAT CATGGTATCCCAGATACCATAGTATTTTTGGAGTATTGGAAACTCCACTCTAACCCAAAGTTTT CATGGCAACTGGCTAGCTTTTGCCTAATACCATGGTTTACAATGTTGTATCCAAACAATACGGC CTTGTTTGGAAGTGTAGTATTTTTGCGGTTTCGAAACAATACTATGGTATTTGATGATAGTGTA GTATTGGTCTATTGGAACTCAAAAGGTGTTTGGTTTGTACAGGCAAAACACAGTTTCAAATACC ATGGTTTCCCCAAAACCGTGGTATATTTGGAGTTTTCGAAACTCCACTCAGGACCTCAGTTTTC TTCTCTTTTCTCTACATATACTTTGTTTTTCCAATAGAACCAAACAGATCTCGGTTTTGAGCAA TACTGTGGTTTTACTGTGGTAAAGTAATACCGTAGTATTTGTGTCATGTACAATTGTAAACTAT GATATCTCAAAACTACAGTATTTCAAAACTGCATTCCCAAACAGGCCCTACTTCTCATAACCAT GGTACTTTTGGAGCTGCCAAAACTACGGTATTGTCACGACAATTGCAAAGTATAGTATTGTAAA ACCATAGCTTTGAGAAACATTGTTACCAAACAGGCCCTAACACATATCTGCACATCTTCCCATT GTAATACATGAAACACCATTGTACCTTAACTAAGATGGTGTTTGGTTCCCCTAACTAAAGTTTA GTACGTGTCACATTGGATGTTTGAACACCAATTACGAGTATTAAATATAGTCTAATTACGAAAT TGATTATATAGATGAAGACTAAACGACAAGACGAATTTATTAAGCTTAATAATTCATGATTAGT AAATGTTTACTGTAGCATCATATGAGCGAACCATGGACTAATTAGGTTTAATGGATTTGTCTTA CCGTTTAGTCCTTATTTGTGTAATTAGTTTTGTAATTAGACTATATTTAATACTTCTAACTAGT GTTCAAAGATCCGATGTGACGGAACTAAAATTTAGTCCTTTTAATCCAAATAGACCTTAATAAT TCATCTGGATATATTCAACAAAACAAAAAATAATAGTATCACAAATATCACATCCATGATTCCT AGATATACAATGTTGAAATTAACTTAAAATAGATCACAATGCGATACATAATGTTAGCACGGAA TGGCACTCACATCTCGGAATACCTTTTGTATGCTTTAAAATTATATAAGTTTTAGCATTCCCCA TATCTAAGTAGAAAAAAGTTCCAATACATTACTCATCTATTTGTATTTGTATACCACAAACTGA AGCTAATCTTTGTTTATTCTTGTAATCTCACCAGCTGTATTTCTTTGATATATGCAAAAGAGCC TCTACCGATGGTTAGGTGGTTTGAGTAGCATTCTTCCGGTCCTGGTTCGACTTTCCATCAGATC GAAATTCAGGCTAGGGTTAAAAAATTCTCTCATTTATCCCATGCCAAAGCACAAGACTAAGGCA CATCCCTAGTCATGGTCGTTCTCACATGGGCTATGGTGTTGCTGTGTATGTGGGGCAGGGCCGC AGGGGTTTCTCCAGCTCTCCACCAACGTGAAAAGGACAAAAGGTACTCTCCTTAATGCAATGCC TGACCCCCCCCCCCACCAGCGCAGTTCGAGGTTTTTTATTATTTTTTACATACTATCACTAATA TTTCAATCACCAATATGTAATTAGTTTATCTAGTTGTGCCAGAACTATGCATTGTCATTCAAGC TACGTAGCCAGCAAACCAACCATTTGTATTTCAAGATGATAGACAAAACTAAAGTTGGGGAGAA AAGAACCGTCCATGGCCAAAATTGTAATTTGTAATCTCCAACATGTGCTTTTGCAGTTACAGTT ATCTTGAGTACTACTTGACTGCATAAATGTTGTCATTACCTGTACATAACTTAGATGGGCATGA TCGAATTAAAGCTACAACTTACAAAAAACAACTGCAGTTTTTCTGAGGATGTAGCATGTGCACC TTGTGAGAATATATGCAACAGCCAGGACAGTTGATAATGATCTCACAAAAGTTATCAGACGTGT TTTCACAGCTTGACTTGCTGCTGAAGGCAAGACAACTGGATCCAAACCCCTGCAGATTAGTGTT GCTCCTGTCCAGAGAAGTAGAGGTTGAAGGTACGACGAAGAAATCAAATATGTAGGACTCTTCT TCCAGTTGCCTCCATGATCAAAACGGTTTCTAATATCCCGCATTAGAGGCAAAAAACCCCACAG AGCAAACACAATAATCCCGATTGCAGGGACCACAAGTGAGGTAGCAGGATTTGCAAGTAAAGCA TCACATGACCTAGTTAGTGCTAATGATGTGTTCTTGACAAGAGGAATTTCCTTCAAAGGAATTG GCAAGGCAAAAGATCTAAAGCCCAAAGATCTATATCTGCGAGGTGTATAAAGCATGGGCATGCA GCTACTCTCTAACACATTGCGACCCCAACAGTCTCGCCTATCAGCAACTGAAGGAAACGAGGTG GATGGCAAGGGAAGAGAACTCCTCATCTCAGAACTCCTAAATTTGTTCCTTTGGCAAAAGATGT CAGTAGCAGTTACTCTTTGGAACAGCTGAGATGTCAATCCAACTGCCATCTCAACCAAAACTCA AATCCAATGAAATTTACATCCACTGGATGCAGTTTCTTATCAGCCACTGATGTGTAATATGTGC TAGATTGCAACC
Genomic sequence	TOO LONG (>5KB) TO SHOW GENOMIC SEQUENCE OF THIS CIRCULAR RNA. PLEASE FIND THE CORRESPONDING GENOMIC SEQUENCE AT DOWNLOAD SECTION.

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.051235251

Conservation Information
Conserved circRNAs	NA
PMCS	0.051235251

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							79108633-79113814(-)
						
						Potential amino acid sequence
						
							MVSSRSCKNTSLSNMHVILAVLICMNFNVSISMLSSCMIDLVSLCSVLLSFVNTKIVFVLFSLI
QQVQKFLMDMRNPNDTRNGCNLAHITHQWLIRNCIQWM*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	79108633-79113814(-)
Potential amino acid sequence	MVSSRSCKNTSLSNMHVILAVLICMNFNVSISMLSSCMIDLVSLCSVLLSFVNTKIVFVLFSLI QQVQKFLMDMRNPNDTRNGCNLAHITHQWLIRNCIQWM*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020; Ma et al., 2021b

circRNA

Detail information of Zm00001d029608_circ_g.8

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