Plant Circular RNA Database

Detail information of Zm00001d037401_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d037401_circ_g.2
					
						ID in PlantcircBase
						zma_circ_009034
					
						Alias
						zma_circ_0002314
					
						Organism
						
							Zea mays						
					
						Position
						
							chr6: 124538749-124552260  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							e-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d037401						
					
						Parent gene annotation
						
							proteasome activating protein 200
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d037401_circ_g.1 Zm00001d037401_circ_g.3 						
					
						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
						Zm00001d037401_T001:6
Zm00001d037401_T002:4

General Information
CircRNA Name	Zm00001d037401_circ_g.2
ID in PlantcircBase	zma_circ_009034
Alias	zma_circ_0002314
Organism	Zea mays
Position	chr6: 124538749-124552260 JBrowse»
Reference genome	AGPv4.38
Type	e-circRNA
Identification method	find_circ
Parent gene	Zm00001d037401
Parent gene annotation	proteasome activating protein 200
Parent gene strand	-
Alternative splicing	Zm00001d037401_circ_g.1 Zm00001d037401_circ_g.3
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	Zm00001d037401_T001:6 Zm00001d037401_T002:4

			
						 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  
						
							AGCTTTTGGGTCACGCAAATTTCCCGTGAGTGTGAGAACACAATTAGAAATTAGAGAAGGCCAA
CGTTTCAACAATTTTGTAAGCGATCTTCCAGCATACctgagcagatgaatggttcatgctgtca
agtagttcatcaagaattttaacatggtattgcttctctgctggggacattttgggtggagaaa
tttctatt

									
								

					

						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: 1396
Transcript exons: 124538749-124539647,124539785-124539879,124551146-124551
291,124551735-124551777,124551965-124552008,124552092-12
4552260
CTGAGCAGATGAATGGTTCATGCTGTCAAGTAGTTCATCAAGAATTTTAACATGGTATTGCTTC
TCTGCTGGGGACATTTTGGGTGGAGAAATTTCTATTAGAGCAACGGACAGAAAAGAATATCTCT
TCGCAAGTACGCTAGTTGCCATGGAATGAGGAAGAGGAGTACATAAGCATTCTAATACTTTTTG
CCTGAGAACAGGAGCACGAGTTCCAGCTCTTTCTTTTCCTGTAACAGCATATCGAATACAAGCT
GCCCATTCAGGAGCTGACTCCACAGATGGTGCTAACATAATCTTATGCAACTGGGCCATCAACC
AGTTGTTCTCACATTCCAGATTCCCAATGATATCAGAGTGCAGCATCCCAGCCATCGCTTCAGC
AGCGACACATTGCCTTGGTCTCTCTTTTGAAATTAAAAACTCTTCTAGTGTACTCTGAAGAGAA
GAGATTACTGGCATTCCACATTGCTGTATAAGCCTTTTGAATATCCTAGCAAAACTGGAATAGA
ATGTGTGACCACGCAGTAAAGAAATCCAACTAGGAGTACGTGGCCATGAGGCAGAGAAATCAAA
ATAGAAGTAAGTTATTGCTTTGTCAGATCCGCTTTGAAAAGATGATGCCCCATAACTCGCTTTT
GACGAACCATCATTGTCGGAAATAATATGAACATGAGATAAACTGTTCAGTGTCTCATTCATGA
ATCCTTCCTCCCGGATTATCTCATTCAAAATCTCTTCTGTTGATGAAATATTGCAATCTTCAGG
GTGATCTATTGGTTGCTTAGAATTTTGTGCAGATGTCTTATGAGGTGATCCTTGCAATAATGTG
TTCAAAGCAGATATAGCAAGCATTCTTGAGTGGGGCAGTTGACTCTTTAAATTTCTTAAGAAAT
GACCAGCAATTTTTGCAAGCATTTGTGAATATATGCCAGATTCGCTTCTGGATGCCAAAATTAG
TAATAGTAATACTCTGTTGGCCATCAAATTGTACCTCCAATGTAGTCCATTAGTCTCAAAGCCC
AAAGCATTAATTTGAGAAATTAGACTGAGAAATCCTGGCTTGTCAGCTTGATTTTCAGGAGTTT
TAAAGAAGCTCCTTGATATTCCAGAGAAACGTATATTATATGTTACAAAGAGCTCAGTAATAGC
TTTCTGACACTTCAACGATTCATGATGAGAGCTTTCCAGAATTCCCATGATAAAGGAAGAGAGG
GAAACAGAATCAGTGGTCAAGTGTCTTAAAACAGTCTGTGAGATCAGAATGCTGCAAGAACCAA
GAACAACATGTTCAGGAGCTTTTGGGTCACGCAAATTTCCCGTGAGTGTGAGAACACAATTAGA
AATTAGAGAAGGCCAACGTTTCAACAATTTTGTAAGCGATCTTCCAGCATAC
						
					

						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	AGCTTTTGGGTCACGCAAATTTCCCGTGAGTGTGAGAACACAATTAGAAATTAGAGAAGGCCAA CGTTTCAACAATTTTGTAAGCGATCTTCCAGCATACctgagcagatgaatggttcatgctgtca agtagttcatcaagaattttaacatggtattgcttctctgctggggacattttgggtggagaaa tttctatt
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: 1396 Transcript exons: 124538749-124539647,124539785-124539879,124551146-124551 291,124551735-124551777,124551965-124552008,124552092-12 4552260 CTGAGCAGATGAATGGTTCATGCTGTCAAGTAGTTCATCAAGAATTTTAACATGGTATTGCTTC TCTGCTGGGGACATTTTGGGTGGAGAAATTTCTATTAGAGCAACGGACAGAAAAGAATATCTCT TCGCAAGTACGCTAGTTGCCATGGAATGAGGAAGAGGAGTACATAAGCATTCTAATACTTTTTG CCTGAGAACAGGAGCACGAGTTCCAGCTCTTTCTTTTCCTGTAACAGCATATCGAATACAAGCT GCCCATTCAGGAGCTGACTCCACAGATGGTGCTAACATAATCTTATGCAACTGGGCCATCAACC AGTTGTTCTCACATTCCAGATTCCCAATGATATCAGAGTGCAGCATCCCAGCCATCGCTTCAGC AGCGACACATTGCCTTGGTCTCTCTTTTGAAATTAAAAACTCTTCTAGTGTACTCTGAAGAGAA GAGATTACTGGCATTCCACATTGCTGTATAAGCCTTTTGAATATCCTAGCAAAACTGGAATAGA ATGTGTGACCACGCAGTAAAGAAATCCAACTAGGAGTACGTGGCCATGAGGCAGAGAAATCAAA ATAGAAGTAAGTTATTGCTTTGTCAGATCCGCTTTGAAAAGATGATGCCCCATAACTCGCTTTT GACGAACCATCATTGTCGGAAATAATATGAACATGAGATAAACTGTTCAGTGTCTCATTCATGA ATCCTTCCTCCCGGATTATCTCATTCAAAATCTCTTCTGTTGATGAAATATTGCAATCTTCAGG GTGATCTATTGGTTGCTTAGAATTTTGTGCAGATGTCTTATGAGGTGATCCTTGCAATAATGTG TTCAAAGCAGATATAGCAAGCATTCTTGAGTGGGGCAGTTGACTCTTTAAATTTCTTAAGAAAT GACCAGCAATTTTTGCAAGCATTTGTGAATATATGCCAGATTCGCTTCTGGATGCCAAAATTAG TAATAGTAATACTCTGTTGGCCATCAAATTGTACCTCCAATGTAGTCCATTAGTCTCAAAGCCC AAAGCATTAATTTGAGAAATTAGACTGAGAAATCCTGGCTTGTCAGCTTGATTTTCAGGAGTTT TAAAGAAGCTCCTTGATATTCCAGAGAAACGTATATTATATGTTACAAAGAGCTCAGTAATAGC TTTCTGACACTTCAACGATTCATGATGAGAGCTTTCCAGAATTCCCATGATAAAGGAAGAGAGG GAAACAGAATCAGTGGTCAAGTGTCTTAAAACAGTCTGTGAGATCAGAATGCTGCAAGAACCAA GAACAACATGTTCAGGAGCTTTTGGGTCACGCAAATTTCCCGTGAGTGTGAGAACACAATTAGA AATTAGAGAAGGCCAACGTTTCAACAATTTTGTAAGCGATCTTCCAGCATAC
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
						0.135223451

Conservation Information
Conserved circRNAs	NA
PMCS	0.135223451

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							124551981-124538757(+)
124551983-124552206(-)
						
						Potential amino acid sequence
						
							MIKEERETESVVKCLKTVCEIRMLQEPRTTCSGAFGSRKFPVSVRTQLEIREGQRFNNFVSDLP
AYLSR*(+)
MGILESSHHESLKCQKAITELFVTYNIRFSGISRSFFKTPENQADKPGFLSLISQINALGFETN
GLHWRYNLMANRVLLLLILASRSESGIYSQMLAKIAGHFLRNLKSQLPHSRMLAISALNTLLQG
SPHKTSAQNSKQPIDHPEDCNISSTEEILNEIIREEGFMNETLNSLSHVHIISDNDGSSKASYG
ASSFQSGSDKAITYFYFDFSASWPRTPSWISLLRGHTFYSSFARIFKRLIQQCGMPVISSLQST
LEEFLISKERPRQCVAAEAMAGMLHSDIIGNLECENNWLMAQLHKIMLAPSVESAPEWAACIRY
AVTGKERAGTRAPVLRQKVLECLCTPLPHSMATSVLAKRYSFLSVALIEISPPKMSPAEKQYHV
KILDELLDSMNHSSAQVCWKIAYKIVETLAFSNF*(-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	124551981-124538757(+) 124551983-124552206(-)
Potential amino acid sequence	MIKEERETESVVKCLKTVCEIRMLQEPRTTCSGAFGSRKFPVSVRTQLEIREGQRFNNFVSDLP AYLSR(+) MGILESSHHESLKCQKAITELFVTYNIRFSGISRSFFKTPENQADKPGFLSLISQINALGFETN GLHWRYNLMANRVLLLLILASRSESGIYSQMLAKIAGHFLRNLKSQLPHSRMLAISALNTLLQG SPHKTSAQNSKQPIDHPEDCNISSTEEILNEIIREEGFMNETLNSLSHVHIISDNDGSSKASYG ASSFQSGSDKAITYFYFDFSASWPRTPSWISLLRGHTFYSSFARIFKRLIQQCGMPVISSLQST LEEFLISKERPRQCVAAEAMAGMLHSDIIGNLECENNWLMAQLHKIMLAPSVESAPEWAACIRY AVTGKERAGTRAPVLRQKVLECLCTPLPHSMATSVLAKRYSFLSVALIEISPPKMSPAEKQYHV KILDELLDSMNHSSAQVCWKIAYKIVETLAFSNF(-)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d037401_circ_g.2

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