Plant Circular RNA Database

Detail information of Zm00001d044222_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d044222_circ_g.2
					
						ID in PlantcircBase
						zma_circ_007876
					
						Alias
						zma_circ_0001359, GRMZM2G047093_C1
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 222355277-222358096  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ, CIRI2
					
						Parent gene
						
							Zm00001d044222						
					
						Parent gene annotation
						
							tetratricopeptide repeat (TPR)-containing protein
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d044222_circ_g.1 Zm00001d044222_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  
						
							GT-AG							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
						Zm00001d044222_T013:7
Zm00001d044222_T029:7
Zm00001d044222_T032:7
Zm00001d044222_T017:7
Zm00001d044222_T020:7
Zm00001d044222_T005:8
Zm00001d044222_T004:7
Zm00001d044222_T016:7
Zm00001d044222_T030:6
Zm00001d044222_T011:7
Zm00001d044222_T025:7
Zm00001d044222_T009:7
Zm00001d044222_T034:7
Zm00001d044222_T002:6
Zm00001d044222_T027:7
Zm00001d044222_T022:7
Zm00001d044222_T031:7
Zm00001d044222_T003:7
Zm00001d044222_T012:6
Zm00001d044222_T026:8
Zm00001d044222_T036:4
Zm00001d044222_T021:8
Zm00001d044222_T038:2
Zm00001d044222_T001:6
Zm00001d044222_T008:7
Zm00001d044222_T023:7

General Information
CircRNA Name	Zm00001d044222_circ_g.2
ID in PlantcircBase	zma_circ_007876
Alias	zma_circ_0001359, GRMZM2G047093_C1
Organism	Zea mays
Position	chr3: 222355277-222358096 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ, CIRI2
Parent gene	Zm00001d044222
Parent gene annotation	tetratricopeptide repeat (TPR)-containing protein
Parent gene strand	+
Alternative splicing	Zm00001d044222_circ_g.1 Zm00001d044222_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	GT-AG 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	Zm00001d044222_T013:7 Zm00001d044222_T029:7 Zm00001d044222_T032:7 Zm00001d044222_T017:7 Zm00001d044222_T020:7 Zm00001d044222_T005:8 Zm00001d044222_T004:7 Zm00001d044222_T016:7 Zm00001d044222_T030:6 Zm00001d044222_T011:7 Zm00001d044222_T025:7 Zm00001d044222_T009:7 Zm00001d044222_T034:7 Zm00001d044222_T002:6 Zm00001d044222_T027:7 Zm00001d044222_T022:7 Zm00001d044222_T031:7 Zm00001d044222_T003:7 Zm00001d044222_T012:6 Zm00001d044222_T026:8 Zm00001d044222_T036:4 Zm00001d044222_T021:8 Zm00001d044222_T038:2 Zm00001d044222_T001:6 Zm00001d044222_T008:7 Zm00001d044222_T023:7

			
						 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  
						
							TCAAAGAACAAATGGCATCCGTCTTGTTCAAACTTGGCCGCTTTGATGAATCTGAGAGCATATA
CAGATCCCTGCTTTTTATGAATCCTGATAACTACAAaaatcctacgagactaagcaatataaga
aagggcttaaggctgcagattccatattaaaaaagtttccagagcatggtggtatgttgaagga
tatgttct

									
								

					

						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
						
							AAATCCTACGAGACTAAGCAATATAAGAAAGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGT
TTCCAGAGCATGGTGGTATGTTGAAGGATATGTTCTGGTTCTATTATTACCTCATACTGTTGTA
TTCACTTGTAACTTCCCTCTATGTCCCGTTTCATGTAGAAACACTATCAATGAAAGGTTTGACG
CTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAGGTTATCA
ATTATTGCAATGAATTCTCTGTTGTTGATGTGATGATTAAATGGGGTACAAGTTTCAGAACTCA
GAACTAACTAATAATAAACTTTTTGCAGAATGATCTGAAGAGTCATGTCTGTTGGCATGTTTAT
GGTTTGCTTTATCGGTCAGATAGAGAATACAGAGAAGCTATAAAATGTTACAGAAATGCATTGA
GGATTGATCCAGATAACATAGAAATTCTTCGTGACTTGTCCCTTCTCCAGGTTGGCGTAAATTA
ACAAGCGTTTTTTATTTATATTTTGGCAGTGGTGAGAGCATTCCCATTGAGTCACCAGGTCACG
GGTTCGAAGCAGCCTCTCCGCATTTGTGGGGGGAAAGCTTGACTCGGTTTATCCCTCCCCCAGA
CTCCACTCATGTGGGAGCCTCCGTCACTGGGTCTGCCCTTCTTTTTTCTTTTGACACAATAGTT
TCCTACTTTCCTTAAGTGTAGCCTCAAACCCTCAATGAACCACTACCAATTAAGATGTGCCACA
TTCCAGTCATATATGACTCACTTAATGTTCTGTGCATAGCTCATTACTATCATGAAATGGTCAC
TAAGCATTTTCGTCATTTTTGTTTTGGTCAAGGCACATGATTTTGTTCATTATCTTATTGCTGA
ACATGTAAAGCTAAAGACAGATAATACATAATAGCTGCTGTTCGAATTTGTAACTTGTGTTGGC
ACCACTACTTTATACACAACTGCAGATTTCTGTTTGAACTCATCACTGTTATCCTTCTAAAATG
TATAATGCTTATCTAGACTTCAGTTCTTATTTTAAGAACAGAATTTTCTTTGCCCTCTAATATT
TTATTTTTCATCTTTTACACAGGCACAGATGAGGGACTTGTCTGGCTTTGTTGAGACTAGGCAA
CAACTTTTGTCGTTAAAGCCAAATCACCGCATGAACTGGATTGGTTTTGCGGTTGCTCATCATT
TGAATTCTAAGTATGCCACTTTCTAGTCGATGTCGATTAGAACCAATGCATAATATGTCTTGGA
ACACTACTGAATTTTTATATGCTACATATGCTATGGTGAAAGTACGGTAGCAAACTTCATCCCG
ATTCCCGAACATTGTTGAGTGTGCACTGTAAGCAATTGAAGTAGTACACGGTATAAAGTGCGAG
CTGAATACAATCTTCTTGGCTCATGGGTTCCTTTATCATGTCAATTATTTGATTGCTCTTTGTC
ATCATTGCAAAACATACTTTGTATAATATATGGCTTTTTCATTTTTTGGCATATTGGTGTTCTT
TTCTTTTAAGTGTGTAGATAGCCTAAAGGTCCATTAGTCCAGGGTTTGCACAGATGTCTCTGCC
TCACTTGTATATACCTTATTTCTTATAATTGAGCTGTACAGCCTGAAGATATTTTTCTTGTGAT
CCAAACCTGACGACTTACGATTTTGTTTGTATTCTTTTATATCAGATGGATAAACTTGTTCATT
TATTTGTGATCTATGTGCTAAAGCTTATGATTAAGACAAAGCATTTACTGCATGAAAGAATTAA
TCACTTAACGTGGTTGTTTGACTTGGAACTGATACTGATTGTCACTTGCAGTTCTTCCAAGGCA
GTAGAAGTATTGGAGGCATACGAGGGAACACTGGAAGATGATTATCCTCCAGAGAATGAGCGAT
ATGAACACAATGAAATGCTGCTGTATAAGGTTTGTGTTTCTTGAATAGGATTGCAATTTCTTTT
TATTAGTATTGTATCAGAAAAAATGTTTAGCATTGGTTCATGTTCTTTCTGGCCATTGTTCTAT
TTATGTCCTTTGGCTTTTGCTATAAAATAATATTTGATTGCCAATTTTGTATTACTAGATGTTA
ATCGAGAACTTGTGCTCATTTGTTTTGCTTATTGTTGATGGTAGGATGCAATATTTCTTTTTGT
TTTAACTTCATGCCATCTAGATTTGTTGATTTATTATTTTAGTTTAGTATACTTTTTAGCATTT
GGTGTCTGTTTTTGTTCACCGTATAGTATTCTGTTCAATTGCTCTACATCCACCTTCCATGTTG
TGTGAAGCTTGTGGTTTGAGTTATGAAATACTCAAATAAGTGGTACCTAATTATTTTCTATTTT
TGATGGCATTGGTTCACACGTTATGACCATGTTCATTTCTTTAGCTTGCTATTATTCTGCTGAT
AACTTACAAGTTCATGCTATGCGTCTATAATGCAAATATATGTTGCAGTCATGATTCCGTGTAA
TCTTATTGTCATTTTTAACAGATATCATTGTTTGAAGAATGTGGGATGCTAGACAGAGCCCTTG
AGGAAATGCAGAAGAAGGAGAGCAAAATTGTGAGTCATATCCTTCTATTTTATGTTGCTTGTAT
GTGGTGGTTGTTGGGGACCTTTGAAGGTGATGTCTGAATAATTATGTTTTGTGCTTGTTCATGT
CAATTTTGTCTGCTAGGTTGACAAGCTATCATTCAAAGAACAAATGGCATCCGTCTTGTTCAAA
CTTGGCCGCTTTGATGAATCTGAGAGCATATACAGATCCCTGCTTTTTATGAATCCTGATAACT
ACAA
						
					

			
		

Sequences
Splice junction sequence	TCAAAGAACAAATGGCATCCGTCTTGTTCAAACTTGGCCGCTTTGATGAATCTGAGAGCATATA CAGATCCCTGCTTTTTATGAATCCTGATAACTACAAaaatcctacgagactaagcaatataaga aagggcttaaggctgcagattccatattaaaaaagtttccagagcatggtggtatgttgaagga tatgttct
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	AAATCCTACGAGACTAAGCAATATAAGAAAGGGCTTAAGGCTGCAGATTCCATATTAAAAAAGT TTCCAGAGCATGGTGGTATGTTGAAGGATATGTTCTGGTTCTATTATTACCTCATACTGTTGTA TTCACTTGTAACTTCCCTCTATGTCCCGTTTCATGTAGAAACACTATCAATGAAAGGTTTGACG CTAAACTGCATGGACCGAAAATCTGAAGCGTACGAGCTTGTTCGACGAGGCCTGAAGGTTATCA ATTATTGCAATGAATTCTCTGTTGTTGATGTGATGATTAAATGGGGTACAAGTTTCAGAACTCA GAACTAACTAATAATAAACTTTTTGCAGAATGATCTGAAGAGTCATGTCTGTTGGCATGTTTAT GGTTTGCTTTATCGGTCAGATAGAGAATACAGAGAAGCTATAAAATGTTACAGAAATGCATTGA GGATTGATCCAGATAACATAGAAATTCTTCGTGACTTGTCCCTTCTCCAGGTTGGCGTAAATTA ACAAGCGTTTTTTATTTATATTTTGGCAGTGGTGAGAGCATTCCCATTGAGTCACCAGGTCACG GGTTCGAAGCAGCCTCTCCGCATTTGTGGGGGGAAAGCTTGACTCGGTTTATCCCTCCCCCAGA CTCCACTCATGTGGGAGCCTCCGTCACTGGGTCTGCCCTTCTTTTTTCTTTTGACACAATAGTT TCCTACTTTCCTTAAGTGTAGCCTCAAACCCTCAATGAACCACTACCAATTAAGATGTGCCACA TTCCAGTCATATATGACTCACTTAATGTTCTGTGCATAGCTCATTACTATCATGAAATGGTCAC TAAGCATTTTCGTCATTTTTGTTTTGGTCAAGGCACATGATTTTGTTCATTATCTTATTGCTGA ACATGTAAAGCTAAAGACAGATAATACATAATAGCTGCTGTTCGAATTTGTAACTTGTGTTGGC ACCACTACTTTATACACAACTGCAGATTTCTGTTTGAACTCATCACTGTTATCCTTCTAAAATG TATAATGCTTATCTAGACTTCAGTTCTTATTTTAAGAACAGAATTTTCTTTGCCCTCTAATATT TTATTTTTCATCTTTTACACAGGCACAGATGAGGGACTTGTCTGGCTTTGTTGAGACTAGGCAA CAACTTTTGTCGTTAAAGCCAAATCACCGCATGAACTGGATTGGTTTTGCGGTTGCTCATCATT TGAATTCTAAGTATGCCACTTTCTAGTCGATGTCGATTAGAACCAATGCATAATATGTCTTGGA ACACTACTGAATTTTTATATGCTACATATGCTATGGTGAAAGTACGGTAGCAAACTTCATCCCG ATTCCCGAACATTGTTGAGTGTGCACTGTAAGCAATTGAAGTAGTACACGGTATAAAGTGCGAG CTGAATACAATCTTCTTGGCTCATGGGTTCCTTTATCATGTCAATTATTTGATTGCTCTTTGTC ATCATTGCAAAACATACTTTGTATAATATATGGCTTTTTCATTTTTTGGCATATTGGTGTTCTT TTCTTTTAAGTGTGTAGATAGCCTAAAGGTCCATTAGTCCAGGGTTTGCACAGATGTCTCTGCC TCACTTGTATATACCTTATTTCTTATAATTGAGCTGTACAGCCTGAAGATATTTTTCTTGTGAT CCAAACCTGACGACTTACGATTTTGTTTGTATTCTTTTATATCAGATGGATAAACTTGTTCATT TATTTGTGATCTATGTGCTAAAGCTTATGATTAAGACAAAGCATTTACTGCATGAAAGAATTAA TCACTTAACGTGGTTGTTTGACTTGGAACTGATACTGATTGTCACTTGCAGTTCTTCCAAGGCA GTAGAAGTATTGGAGGCATACGAGGGAACACTGGAAGATGATTATCCTCCAGAGAATGAGCGAT ATGAACACAATGAAATGCTGCTGTATAAGGTTTGTGTTTCTTGAATAGGATTGCAATTTCTTTT TATTAGTATTGTATCAGAAAAAATGTTTAGCATTGGTTCATGTTCTTTCTGGCCATTGTTCTAT TTATGTCCTTTGGCTTTTGCTATAAAATAATATTTGATTGCCAATTTTGTATTACTAGATGTTA ATCGAGAACTTGTGCTCATTTGTTTTGCTTATTGTTGATGGTAGGATGCAATATTTCTTTTTGT TTTAACTTCATGCCATCTAGATTTGTTGATTTATTATTTTAGTTTAGTATACTTTTTAGCATTT GGTGTCTGTTTTTGTTCACCGTATAGTATTCTGTTCAATTGCTCTACATCCACCTTCCATGTTG TGTGAAGCTTGTGGTTTGAGTTATGAAATACTCAAATAAGTGGTACCTAATTATTTTCTATTTT TGATGGCATTGGTTCACACGTTATGACCATGTTCATTTCTTTAGCTTGCTATTATTCTGCTGAT AACTTACAAGTTCATGCTATGCGTCTATAATGCAAATATATGTTGCAGTCATGATTCCGTGTAA TCTTATTGTCATTTTTAACAGATATCATTGTTTGAAGAATGTGGGATGCTAGACAGAGCCCTTG AGGAAATGCAGAAGAAGGAGAGCAAAATTGTGAGTCATATCCTTCTATTTTATGTTGCTTGTAT GTGGTGGTTGTTGGGGACCTTTGAAGGTGATGTCTGAATAATTATGTTTTGTGCTTGTTCATGT CAATTTTGTCTGCTAGGTTGACAAGCTATCATTCAAAGAACAAATGGCATCCGTCTTGTTCAAA CTTGGCCGCTTTGATGAATCTGAGAGCATATACAGATCCCTGCTTTTTATGAATCCTGATAACT ACAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.064858026

Conservation Information
Conserved circRNAs	NA
PMCS	0.064858026

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							222355455-222355331(+)
						
						Potential amino acid sequence
						
							MKGLTLNCMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNI
EILRDLSLLQAQMRDLSGFVETRQQLLSLKPNHRMNWIGFAVAHHLNSNSSKAVEVLEAYEGTL
EDDYPPENERYEHNEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMASVLFKLGRF
DESESIYRSLLFMNPDNYKNPTRLSNIRKGLRLQIPY*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						responsive to drought stress

Functional Information
Coding potential	Y
Potential coding position	222355455-222355331(+)
Potential amino acid sequence	MKGLTLNCMDRKSEAYELVRRGLKNDLKSHVCWHVYGLLYRSDREYREAIKCYRNALRIDPDNI EILRDLSLLQAQMRDLSGFVETRQQLLSLKPNHRMNWIGFAVAHHLNSNSSKAVEVLEAYEGTL EDDYPPENERYEHNEMLLYKISLFEECGMLDRALEEMQKKESKIVDKLSFKEQMASVLFKLGRF DESESIYRSLLFMNPDNYKNPTRLSNIRKGLRLQIPY*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	responsive to drought stress

			
						 Other Information
					
						References
						Ma et al., 2021b;Zhang et al., 2019

circRNA

Detail information of Zm00001d044222_circ_g.2

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