Plant Circular RNA Database

Detail information of Zm00001d005324_circ_g.1

			
						 General Information
					
						CircRNA Name
						Zm00001d005324_circ_g.1
					
						ID in PlantcircBase
						zma_circ_007306
					
						Alias
						Zm02circ00085
					
						Organism
						
							Zea mays						
					
						Position
						
							chr2: 169620925-169623162  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d005324						
					
						Parent gene annotation
						
							U-box domain-containing protein 33
							
						Parent gene strand
						-
					
						Alternative splicing
						
							NA						
					
						Support reads
						NA
					
						Tissues
						leaf, endosperm
					
						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
						Zm00001d005324_T002:5
Zm00001d005324_T003:6
Zm00001d005324_T004:6
Zm00001d005324_T001:5

General Information
CircRNA Name	Zm00001d005324_circ_g.1
ID in PlantcircBase	zma_circ_007306
Alias	Zm02circ00085
Organism	Zea mays
Position	chr2: 169620925-169623162 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	CIRI2
Parent gene	Zm00001d005324
Parent gene annotation	U-box domain-containing protein 33
Parent gene strand	-
Alternative splicing	NA
Support reads	NA
Tissues	leaf, endosperm
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	Zm00001d005324_T002:5 Zm00001d005324_T003:6 Zm00001d005324_T004:6 Zm00001d005324_T001:5

			
						 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  
						
							TTGTACTGTGATAACATATTGACCATTACTTTCATTTCTCTGCCTCTATGCATCTCCTTCTCCT
TCTCATCAGCGAACTTGTATAGCACTTTGCCACCCAcatgattttttcagccttgtcagctatg
tttctgaaattctgtatctcatcagactgatcagcattctcttgaaaaaagttttccatgtctt
cagaagtg

									
								

					

						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: 617
Transcript exons: 169620925-169621065,169621705-169621764,169621891-169622
011,169622113-169622190,169622334-169622428,169623041-16
9623162
CATGATTTTTTCAGCCTTGTCAGCTATGTTTCTGAAATTCTGTATCTCATCAGACTGATCAGCA
TTCTCTTGAAAAAAGTTTTCCATGTCTTCAGAAGTGACTGATTCCTCTGTGCCTTGTTCAGTCA
ATGTTTCATCTTCCGTTACTAATTGATCAGAATCATTCATTTCAGCCGACTCCTCATCCATGGT
TTCGTCTACAAGATCACTTCGTGGTGTCACGTAGCCGTCAGATTCCTCACCTAGCTCATGTATA
GATGCCAAAATACCTGAGCTCCCCCCTCCATATCCTATATTTTCACTATATTCCAGGTGATCAT
TGCTGGTGGAGATGTGTTTGCCGTTGAGTACCAGCCAAACCTGACAGCACTGGCGAACCACAAC
TTGCCTTGACATGTTCCTTGAACCGATGACTATTCTTTTAATTTTGAGCTTCTTTATGAGGTTC
ACAACACCGGCAACAGTGTCATCATGTGTAAGGTAATGTGCACTAACCTTTCTCGTCCCGCACA
TTTTTTTGTACTGTGATAACATATTGACCATTACTTTCATTTCTCTGCCTCTATGCATCTCCTT
CTCCTTCTCATCAGCGAACTTGTATAGCACTTTGCCACCCA
						
					

						Genomic sequence
						
							CATGATTTTTTCAGCCTTGTCAGCTATGTTTCTGAAATTCTGTATCTCATCAGACTGATCAGCA
TTCTCTTGAAAAAAGTTTTCCATGTCTTCAGAAGTGACTGATTCCTCTGTGCCTTGTTCAGTCA
ATGTTTCATCTTCCTGCACATCATGGTGGACGCAATCAATCTATTGCACCTACACTGGTGGGCA
CAAGTTAAAGACTCCCTGTCAAGGGCGTCGGGCCCTAGTGACGCCGGACCTCAACTACGAAGTT
CGTAGTCTCAGAAGAAGGAGATTAGATTTGGTAATTCTTCCCTTTTTCATAGGGTTTTTTAATT
TGGTGCCCTTAGTTTTGGTGGTATGCTCACTTATACCCTTAGTCGTGTTTTTTTGCTCAGTTGT
GTCCTTCTGTTCTATAGCACTGGAAGAGCACAGCTGGACAAAAAACACGACTAAAGGTATAAGT
GAGCACACCACCAAAACTGAGGGTTACAAGAGCCCAAGGCTCCAACCACTCTTCCTAAACTTAA
GGAGATAAATACGAAACTAATCTACTCCTAAACTTAAGGAGATAAGAAACTAATCTTTTCTTTC
CTAATTTGAGCCCGCTGCACTCTGTGGCGCGGCGCACGTCTCGGGCCCGACGGCGCCTGGTACG
TGCACCCCCACATGACACTCCCAAACATACTTAAGTACACAGTGAACTTAAATGTCTCTTTTTT
TCTAAAAGAAGAGATTTTGAATGCACATATCCTGGAAATTTACCCTAAAGATATGACTCTCAGA
AAGTATATGTACCGTTACTAATTGATCAGAATCATTCATTTCAGCCGACTCCTCATCCATGGTT
TCGTCTACCTGTAATAAATTAAAATATGACAGTACAGCAGAATTAGAACTAATTTTGAAGTATG
GCCACAAACTTGTTGGTAGAAATGGTGATTGTTTTAGTGGATGTCAATTGTTCACTGGAAATTT
ACTTACAAGATCACTTCGTGGTGTCACGTAGCCGTCAGATTCCTCACCTAGCTCATGTATAGAT
GCCAAAATACCTGAGCTCCCCCCTCCATATCCTATATTTTCACTATATTCCAGGTGATCATTGC
TGTATTCAAATAGTTGTATTCATCAAGTCATTTCCAGATTTTGTCCGGAGGTTAATGAAAGTAG
ATCATCGGTAATTAACATCGCAGATCTCTAGTATACCTGGTGGAGATGTGTTTGCCGTTGAGTA
CCAGCCAAACCTGACAGCACTGGCGAACCACAACTTGCCTTGACATGTTCCTGCACAAGTTACT
TTAGTTTTTCATTCTAGAGTACACCATTAGTTTTATCCTTGTACAACTTATACATAGAGCAGCA
AATCTGAAGAGATGCTTCATTTTATTTTCAGAATGTGATGTTTGATGTGTAGATTCAGTTCTGA
CCTTGAACCGATGACTATTCTTTTAATTTTGAGCTTCTTTATGAGGTTCACAACACCGGCAACA
GTGTCATCATGTGTAAGGTAATGTGCACTAACCTGCAATAACACATACTTGTTTACAAGGCATG
CGTGTTCCCTGCAATTAAACAACTATATTTATCCTTCGTTTTAGGAGGCAGTTGCAATATTAAT
TTCAATTTATGGTACTGCTAATGTAGATTAAAATTGCAGATGTGATTCAAATAGTGTATCAAAG
AGGAATGTCTAATTGCCATTTTCTTCTTGGCTCAGACCATTTCTTTTAAACAAACTCAGATAAC
TTTTTTAGTTGTTCATGTTGCCTGACTTTTCCTCTTTCCTCTCTCGTGGACAGACCTGGGCCTT
CTTAGCCTTCATTTAGCCCTTCTTTTATTTCTCACAAAGACCTTTTTTTTTGCTTTTCTTTATT
AAAACAAATATTAACCACTTGGGGTTTTCCCCTACTATTTTTTTGCTAAAAATAAGGTGTAGAT
CATTTCTTTTTTTCATTTGCATGAAGGGCCACATGCATATTTACTGGTCTTAGCAGTTTAGCCT
CCTACTTAGCATGAAGCCTCTAACTATCTGATTATTAGGATTCTTTTACCATATAACCACAAAT
AAGCACTGCATAATCTGATGAGGCCTATTAATCTGAAGTAACTCAAATATAAGGATAAATAGCA
TTACCTTTCTCGTCCCGCACATTTTTTTGTACTGTGATAACATATTGACCATTACTTTCATTTC
TCTGCCTCTATGCATCTCCTTCTCCTTCTCATCAGCGAACTTGTATAGCACTTTGCCACCCA
						
					

			
		

Sequences
Splice junction sequence	TTGTACTGTGATAACATATTGACCATTACTTTCATTTCTCTGCCTCTATGCATCTCCTTCTCCT TCTCATCAGCGAACTTGTATAGCACTTTGCCACCCAcatgattttttcagccttgtcagctatg tttctgaaattctgtatctcatcagactgatcagcattctcttgaaaaaagttttccatgtctt cagaagtg
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: 617 Transcript exons: 169620925-169621065,169621705-169621764,169621891-169622 011,169622113-169622190,169622334-169622428,169623041-16 9623162 CATGATTTTTTCAGCCTTGTCAGCTATGTTTCTGAAATTCTGTATCTCATCAGACTGATCAGCA TTCTCTTGAAAAAAGTTTTCCATGTCTTCAGAAGTGACTGATTCCTCTGTGCCTTGTTCAGTCA ATGTTTCATCTTCCGTTACTAATTGATCAGAATCATTCATTTCAGCCGACTCCTCATCCATGGT TTCGTCTACAAGATCACTTCGTGGTGTCACGTAGCCGTCAGATTCCTCACCTAGCTCATGTATA GATGCCAAAATACCTGAGCTCCCCCCTCCATATCCTATATTTTCACTATATTCCAGGTGATCAT TGCTGGTGGAGATGTGTTTGCCGTTGAGTACCAGCCAAACCTGACAGCACTGGCGAACCACAAC TTGCCTTGACATGTTCCTTGAACCGATGACTATTCTTTTAATTTTGAGCTTCTTTATGAGGTTC ACAACACCGGCAACAGTGTCATCATGTGTAAGGTAATGTGCACTAACCTTTCTCGTCCCGCACA TTTTTTTGTACTGTGATAACATATTGACCATTACTTTCATTTCTCTGCCTCTATGCATCTCCTT CTCCTTCTCATCAGCGAACTTGTATAGCACTTTGCCACCCA
Genomic sequence	CATGATTTTTTCAGCCTTGTCAGCTATGTTTCTGAAATTCTGTATCTCATCAGACTGATCAGCA TTCTCTTGAAAAAAGTTTTCCATGTCTTCAGAAGTGACTGATTCCTCTGTGCCTTGTTCAGTCA ATGTTTCATCTTCCTGCACATCATGGTGGACGCAATCAATCTATTGCACCTACACTGGTGGGCA CAAGTTAAAGACTCCCTGTCAAGGGCGTCGGGCCCTAGTGACGCCGGACCTCAACTACGAAGTT CGTAGTCTCAGAAGAAGGAGATTAGATTTGGTAATTCTTCCCTTTTTCATAGGGTTTTTTAATT TGGTGCCCTTAGTTTTGGTGGTATGCTCACTTATACCCTTAGTCGTGTTTTTTTGCTCAGTTGT GTCCTTCTGTTCTATAGCACTGGAAGAGCACAGCTGGACAAAAAACACGACTAAAGGTATAAGT GAGCACACCACCAAAACTGAGGGTTACAAGAGCCCAAGGCTCCAACCACTCTTCCTAAACTTAA GGAGATAAATACGAAACTAATCTACTCCTAAACTTAAGGAGATAAGAAACTAATCTTTTCTTTC CTAATTTGAGCCCGCTGCACTCTGTGGCGCGGCGCACGTCTCGGGCCCGACGGCGCCTGGTACG TGCACCCCCACATGACACTCCCAAACATACTTAAGTACACAGTGAACTTAAATGTCTCTTTTTT TCTAAAAGAAGAGATTTTGAATGCACATATCCTGGAAATTTACCCTAAAGATATGACTCTCAGA AAGTATATGTACCGTTACTAATTGATCAGAATCATTCATTTCAGCCGACTCCTCATCCATGGTT TCGTCTACCTGTAATAAATTAAAATATGACAGTACAGCAGAATTAGAACTAATTTTGAAGTATG GCCACAAACTTGTTGGTAGAAATGGTGATTGTTTTAGTGGATGTCAATTGTTCACTGGAAATTT ACTTACAAGATCACTTCGTGGTGTCACGTAGCCGTCAGATTCCTCACCTAGCTCATGTATAGAT GCCAAAATACCTGAGCTCCCCCCTCCATATCCTATATTTTCACTATATTCCAGGTGATCATTGC TGTATTCAAATAGTTGTATTCATCAAGTCATTTCCAGATTTTGTCCGGAGGTTAATGAAAGTAG ATCATCGGTAATTAACATCGCAGATCTCTAGTATACCTGGTGGAGATGTGTTTGCCGTTGAGTA CCAGCCAAACCTGACAGCACTGGCGAACCACAACTTGCCTTGACATGTTCCTGCACAAGTTACT TTAGTTTTTCATTCTAGAGTACACCATTAGTTTTATCCTTGTACAACTTATACATAGAGCAGCA AATCTGAAGAGATGCTTCATTTTATTTTCAGAATGTGATGTTTGATGTGTAGATTCAGTTCTGA CCTTGAACCGATGACTATTCTTTTAATTTTGAGCTTCTTTATGAGGTTCACAACACCGGCAACA GTGTCATCATGTGTAAGGTAATGTGCACTAACCTGCAATAACACATACTTGTTTACAAGGCATG CGTGTTCCCTGCAATTAAACAACTATATTTATCCTTCGTTTTAGGAGGCAGTTGCAATATTAAT TTCAATTTATGGTACTGCTAATGTAGATTAAAATTGCAGATGTGATTCAAATAGTGTATCAAAG AGGAATGTCTAATTGCCATTTTCTTCTTGGCTCAGACCATTTCTTTTAAACAAACTCAGATAAC TTTTTTAGTTGTTCATGTTGCCTGACTTTTCCTCTTTCCTCTCTCGTGGACAGACCTGGGCCTT CTTAGCCTTCATTTAGCCCTTCTTTTATTTCTCACAAAGACCTTTTTTTTTGCTTTTCTTTATT AAAACAAATATTAACCACTTGGGGTTTTCCCCTACTATTTTTTTGCTAAAAATAAGGTGTAGAT CATTTCTTTTTTTCATTTGCATGAAGGGCCACATGCATATTTACTGGTCTTAGCAGTTTAGCCT CCTACTTAGCATGAAGCCTCTAACTATCTGATTATTAGGATTCTTTTACCATATAACCACAAAT AAGCACTGCATAATCTGATGAGGCCTATTAATCTGAAGTAACTCAAATATAAGGATAAATAGCA TTACCTTTCTCGTCCCGCACATTTTTTTGTACTGTGATAACATATTGACCATTACTTTCATTTC TCTGCCTCTATGCATCTCCTTCTCCTTCTCATCAGCGAACTTGTATAGCACTTTGCCACCCA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.073913025

Conservation Information
Conserved circRNAs	NA
PMCS	0.073913025

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							169623117-169623096(-)
						
						Potential amino acid sequence
						
							MHRGREMKVMVNMLSQYKKMCGTRKVSAHYLTHDDTVAGVVNLIKKLKIKRIVIGSRNMSRQVV
VRQCCQVWLVLNGKHISTSNDHLEYSENIGYGGGSSGILASIHELGEESDGYVTPRSDLVDETM
DEESAEMNDSDQLVTEDETLTEQGTEESVTSEDMENFFQENADQSDEIQNFRNIADKAEKIMWV
AKCYTSSLMRRRRRCIEAEK*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	169623117-169623096(-)
Potential amino acid sequence	MHRGREMKVMVNMLSQYKKMCGTRKVSAHYLTHDDTVAGVVNLIKKLKIKRIVIGSRNMSRQVV VRQCCQVWLVLNGKHISTSNDHLEYSENIGYGGGSSGILASIHELGEESDGYVTPRSDLVDETM DEESAEMNDSDQLVTEDETLTEQGTEESVTSEDMENFFQENADQSDEIQNFRNIADKAEKIMWV AKCYTSSLMRRRRRCIEAEK*(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Han et al., 2020

circRNA

Detail information of Zm00001d005324_circ_g.1

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