Plant Circular RNA Database

Detail information of Zm00001d034565_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d034565_circ_g.2
					
						ID in PlantcircBase
						zma_circ_006966
					
						Alias
						Zm01circ00187, GRMZM2G077079_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr1: 296468918-296470177  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						CIRI2
					
						Parent gene
						
							Zm00001d034565						
					
						Parent gene annotation
						
							Probable tRNA (guanine(26)-N(2))-dimethyltransferase 2
							
						Parent gene strand
						-
					
						Alternative splicing
						
							Zm00001d034565_circ_g.1 						
					
						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
						Zm00001d034565_T007:3
Zm00001d034565_T004:3
Zm00001d034565_T006:3
Zm00001d034565_T002:3
Zm00001d034565_T005:3
Zm00001d034565_T008:3
Zm00001d034565_T009:3
Zm00001d034565_T001:3
Zm00001d034565_T003:3

General Information
CircRNA Name	Zm00001d034565_circ_g.2
ID in PlantcircBase	zma_circ_006966
Alias	Zm01circ00187, GRMZM2G077079_C1
Organism	Zea mays
Position	chr1: 296468918-296470177 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	CIRI2
Parent gene	Zm00001d034565
Parent gene annotation	Probable tRNA (guanine(26)-N(2))-dimethyltransferase 2
Parent gene strand	-
Alternative splicing	Zm00001d034565_circ_g.1
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	Zm00001d034565_T007:3 Zm00001d034565_T004:3 Zm00001d034565_T006:3 Zm00001d034565_T002:3 Zm00001d034565_T005:3 Zm00001d034565_T008:3 Zm00001d034565_T009:3 Zm00001d034565_T001:3 Zm00001d034565_T003:3

			
						 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  
						
							CATGCGATGTGTTCCTCTTGTCCACCAGCGCTTCATGTTCTTCCTTGCGCTTGGCAATAAAGGT
CCTTAAAACAGCAATAGACATGTCTCTGTTGTGAACcacatcaaattcttttggatgcatcagc
atgtgaattcgagcatcaaccaagtaagtttccaccttactagtagtggaagcaccattaaact
ttatgttt

									
								

					

						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: 483
Transcript exons: 296468918-296469039,296469139-296469226,296469905-296470
177
CACATCAAATTCTTTTGGATGCATCAGCATGTGAATTCGAGCATCAACCAAGTAAGTTTCCACC
TTACTAGTAGTGGAAGCACCATTAAACTTTATGTTTCGCTTGCAATCTTCGACGGAAGCTTTAT
CATTGTCCAGAGCAACTATCTTTCCTAAGCCCTCAACTTCACGGGCATACCGGAGAGATCGCAA
CCCAGTTGCAGCCAAAGCCTCGAGGACAAGTGGTGGCTTAAGTTCTCTGGTTACTTTCCAAGGA
GGTTTTGTTGCTTCTTTTGACAGATCATCAATTTGAACTTCAGCTTTATTTAGTTCCATTTCAT
CTTGCTGGCCAGTTGACGCATCCTCTCCATTTTGACAGGATATTTCACTCAGTTTGTCTTTTCC
ATGCGATGTGTTCCTCTTGTCCACCAGCGCTTCATGTTCTTCCTTGCGCTTGGCAATAAAGGTC
CTTAAAACAGCAATAGACATGTCTCTGTTGTGAAC
						
					

						Genomic sequence
						
							CACATCAAATTCTTTTGGATGCATCAGCATGTGAATTCGAGCATCAACCAAGTAAGTTTCCACC
TTACTAGTAGTGGAAGCACCATTAAACTTTATGTTTCGCTTGCAATCTTCGACGGAAGCTGAAG
AAACAAAAACCATAGTGAATTAATGAAATCAAGCGTGGAAGCGTCAATATCTAGGAACATAAGA
AACAAGTTCAGTAAACTATATAGCATTACCTTTATCATTGTCCAGAGCAACTATCTTTCCTAAG
CCCTCAACTTCACGGGCATACCGGAGAGATCGCAACCCAGTTGCAGCCAAAGCCTGAGGAGAAA
AATTAGCAGTGCAATCTACAAACCTAGATATTATGAGAAGAAAACTAGATATTTGAAAAAAAAA
GACTAGGTATCAGTTAATGTTGATGTAGAAGTACACATGAACTACATTTTCCATTAGGGATGAA
ATGTGGGAAGGATATTCCCATCTATCCATCCTTCCAAAGGATTTCAATCTGTCTGTAACCAAGC
CCATATCTCCAATGTCACTTTCAGATGGATATTTAAAGTTGGGTATATGATACGGATATGTAGC
ATTTTATTATGGGAACATATCAGATGCAACTGTAACCATTGGTATAACCGTACAACCAAGACAC
AAGGATGAATATGAGAGGACCTTATAAAAAATATCCATAGGAGATGGAAGGGTTGTTTCAAAAA
AAGAATATTTTTAAACGTCCTACCACTTTCATCATTGGGTCTTGGATGCATGGTTACACTAAAA
AAACGGTTGTTCCTGATATGTTCCCTTTTATTATTAATCTGACTATCCCTTGACCCAAACTATC
CATTAGTATTTGTATTCAACACACCTGATAATATTAGTATCCAAATCTGAATCTGATAAAAACA
TATAACTATCTGCATTCATATCCATATATATATTTGTTCGTATTCGATCCGTTTTTAAACTTAA
TTTGCATATTATTATGAGAAGTCTCACCTCGAGGACAAGTGGTGGCTTAAGTTCTCTGGTTACT
TTCCAAGGAGGTTTTGTTGCTTCTTTTGACAGATCATCAATTTGAACTTCAGCTTTATTTAGTT
CCATTTCATCTTGCTGGCCAGTTGACGCATCCTCTCCATTTTGACAGGATATTTCACTCAGTTT
GTCTTTTCCATGCGATGTGTTCCTCTTGTCCACCAGCGCTTCATGTTCTTCCTTGCGCTTGGCA
ATAAAGGTCCTTAAAACAGCAATAGACATGTCTCTGTTGTGAAC
						
					

			
		

Sequences
Splice junction sequence	CATGCGATGTGTTCCTCTTGTCCACCAGCGCTTCATGTTCTTCCTTGCGCTTGGCAATAAAGGT CCTTAAAACAGCAATAGACATGTCTCTGTTGTGAACcacatcaaattcttttggatgcatcagc atgtgaattcgagcatcaaccaagtaagtttccaccttactagtagtggaagcaccattaaact ttatgttt
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: 483 Transcript exons: 296468918-296469039,296469139-296469226,296469905-296470 177 CACATCAAATTCTTTTGGATGCATCAGCATGTGAATTCGAGCATCAACCAAGTAAGTTTCCACC TTACTAGTAGTGGAAGCACCATTAAACTTTATGTTTCGCTTGCAATCTTCGACGGAAGCTTTAT CATTGTCCAGAGCAACTATCTTTCCTAAGCCCTCAACTTCACGGGCATACCGGAGAGATCGCAA CCCAGTTGCAGCCAAAGCCTCGAGGACAAGTGGTGGCTTAAGTTCTCTGGTTACTTTCCAAGGA GGTTTTGTTGCTTCTTTTGACAGATCATCAATTTGAACTTCAGCTTTATTTAGTTCCATTTCAT CTTGCTGGCCAGTTGACGCATCCTCTCCATTTTGACAGGATATTTCACTCAGTTTGTCTTTTCC ATGCGATGTGTTCCTCTTGTCCACCAGCGCTTCATGTTCTTCCTTGCGCTTGGCAATAAAGGTC CTTAAAACAGCAATAGACATGTCTCTGTTGTGAAC
Genomic sequence	CACATCAAATTCTTTTGGATGCATCAGCATGTGAATTCGAGCATCAACCAAGTAAGTTTCCACC TTACTAGTAGTGGAAGCACCATTAAACTTTATGTTTCGCTTGCAATCTTCGACGGAAGCTGAAG AAACAAAAACCATAGTGAATTAATGAAATCAAGCGTGGAAGCGTCAATATCTAGGAACATAAGA AACAAGTTCAGTAAACTATATAGCATTACCTTTATCATTGTCCAGAGCAACTATCTTTCCTAAG CCCTCAACTTCACGGGCATACCGGAGAGATCGCAACCCAGTTGCAGCCAAAGCCTGAGGAGAAA AATTAGCAGTGCAATCTACAAACCTAGATATTATGAGAAGAAAACTAGATATTTGAAAAAAAAA GACTAGGTATCAGTTAATGTTGATGTAGAAGTACACATGAACTACATTTTCCATTAGGGATGAA ATGTGGGAAGGATATTCCCATCTATCCATCCTTCCAAAGGATTTCAATCTGTCTGTAACCAAGC CCATATCTCCAATGTCACTTTCAGATGGATATTTAAAGTTGGGTATATGATACGGATATGTAGC ATTTTATTATGGGAACATATCAGATGCAACTGTAACCATTGGTATAACCGTACAACCAAGACAC AAGGATGAATATGAGAGGACCTTATAAAAAATATCCATAGGAGATGGAAGGGTTGTTTCAAAAA AAGAATATTTTTAAACGTCCTACCACTTTCATCATTGGGTCTTGGATGCATGGTTACACTAAAA AAACGGTTGTTCCTGATATGTTCCCTTTTATTATTAATCTGACTATCCCTTGACCCAAACTATC CATTAGTATTTGTATTCAACACACCTGATAATATTAGTATCCAAATCTGAATCTGATAAAAACA TATAACTATCTGCATTCATATCCATATATATATTTGTTCGTATTCGATCCGTTTTTAAACTTAA TTTGCATATTATTATGAGAAGTCTCACCTCGAGGACAAGTGGTGGCTTAAGTTCTCTGGTTACT TTCCAAGGAGGTTTTGTTGCTTCTTTTGACAGATCATCAATTTGAACTTCAGCTTTATTTAGTT CCATTTCATCTTGCTGGCCAGTTGACGCATCCTCTCCATTTTGACAGGATATTTCACTCAGTTT GTCTTTTCCATGCGATGTGTTCCTCTTGTCCACCAGCGCTTCATGTTCTTCCTTGCGCTTGGCA ATAAAGGTCCTTAAAACAGCAATAGACATGTCTCTGTTGTGAAC

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.089331578

Conservation Information
Conserved circRNAs	NA
PMCS	0.089331578

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							296470164-296468920(-)
						
						Potential amino acid sequence
						
							MSIAVLRTFIAKRKEEHEALVDKRNTSHGKDKLSEISCQNGEDASTGQQDEMELNKAEVQIDDL
SKEATKPPWKVTRELKPPLVLEALAATGLRSLRYAREVEGLGKIVALDNDKASVEDCKRNIKFN
GASTTSKVETYLVDARIHMLMHPKEFDVVHNRDMSIAVLRTFIAKRKEEHEALVDKRNTSHGKD
KLSEISCQNGEDASTGQQDEMELNKAEVQIDDLSKEATKPPWKVTRELKPPLVLEALAATGLRS
LRYAREVEGLGKIVALDNDKASVEDCKRNIKFNGASTTSKVETYLVDARIHMLMHPKEFDVVHN
RDMSIAVLRTFIAKRKEEHEALVDKRNTSHGKDKLSEISCQNGEDASTGQQDEMELNKAEVQID
DLSKEATKPPWKVTRELKPPLVLEALAATGLRSLRYAREVEGLGKIVALDNDKASVEDCKRNIK
FNGASTTSKVETYLVDARIHMLMHPKEFDVVHNRDMSIAVLRTFIAKRKEEHEALVDKRNTSHG
KDKLSEISCQNGEDASTGQQDEMELNKAEVQIDDLSKEATKPPWKVTRELKPPLVLEALAATGL
RSLRYAREVEGLGKIVALDNDKASVEDCKRNIKFNGASTTSKVETYLVDARIHMLMHPKEFDV(
-)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	296470164-296468920(-)
Potential amino acid sequence	MSIAVLRTFIAKRKEEHEALVDKRNTSHGKDKLSEISCQNGEDASTGQQDEMELNKAEVQIDDL SKEATKPPWKVTRELKPPLVLEALAATGLRSLRYAREVEGLGKIVALDNDKASVEDCKRNIKFN GASTTSKVETYLVDARIHMLMHPKEFDVVHNRDMSIAVLRTFIAKRKEEHEALVDKRNTSHGKD KLSEISCQNGEDASTGQQDEMELNKAEVQIDDLSKEATKPPWKVTRELKPPLVLEALAATGLRS LRYAREVEGLGKIVALDNDKASVEDCKRNIKFNGASTTSKVETYLVDARIHMLMHPKEFDVVHN RDMSIAVLRTFIAKRKEEHEALVDKRNTSHGKDKLSEISCQNGEDASTGQQDEMELNKAEVQID DLSKEATKPPWKVTRELKPPLVLEALAATGLRSLRYAREVEGLGKIVALDNDKASVEDCKRNIK FNGASTTSKVETYLVDARIHMLMHPKEFDVVHNRDMSIAVLRTFIAKRKEEHEALVDKRNTSHG KDKLSEISCQNGEDASTGQQDEMELNKAEVQIDDLSKEATKPPWKVTRELKPPLVLEALAATGL RSLRYAREVEGLGKIVALDNDKASVEDCKRNIKFNGASTTSKVETYLVDARIHMLMHPKEFDV( -)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Han et al., 2020;Zhang et al., 2019

circRNA

Detail information of Zm00001d034565_circ_g.2

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