Plant Circular RNA Database

Detail information of Zm00001d044555_circ_g.2

			
						 General Information
					
						CircRNA Name
						Zm00001d044555_circ_g.2
					
						ID in PlantcircBase
						zma_circ_007919
					
						Alias
						zma_circ_0001397
					
						Organism
						
							Zea mays						
					
						Position
						
							chr3: 231676894-231679438  JBrowse»						
					
						Reference genome
						
							AGPv4.38						
					
						Type  
						
							u-circRNA							
									
						Identification method
						find_circ
					
						Parent gene
						
							Zm00001d044555						
					
						Parent gene annotation
						
							Calcium permeable stress-gated cation channel 1
							
						Parent gene strand
						+
					
						Alternative splicing
						
							Zm00001d044555_circ_g.1 						
					
						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
						Zm00001d044555_T017:6
Zm00001d044555_T002:6
Zm00001d044555_T014:6
Zm00001d044555_T007:6
Zm00001d044555_T003:6
Zm00001d044555_T011:6
Zm00001d044555_T015:6
Zm00001d044555_T019:6
Zm00001d044555_T016:6
Zm00001d044555_T009:6
Zm00001d044555_T004:6
Zm00001d044555_T012:6
Zm00001d044555_T013:6
Zm00001d044555_T018:6
Zm00001d044555_T006:6

General Information
CircRNA Name	Zm00001d044555_circ_g.2
ID in PlantcircBase	zma_circ_007919
Alias	zma_circ_0001397
Organism	Zea mays
Position	chr3: 231676894-231679438 JBrowse»
Reference genome	AGPv4.38
Type	u-circRNA
Identification method	find_circ
Parent gene	Zm00001d044555
Parent gene annotation	Calcium permeable stress-gated cation channel 1
Parent gene strand	+
Alternative splicing	Zm00001d044555_circ_g.1
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	Zm00001d044555_T017:6 Zm00001d044555_T002:6 Zm00001d044555_T014:6 Zm00001d044555_T007:6 Zm00001d044555_T003:6 Zm00001d044555_T011:6 Zm00001d044555_T015:6 Zm00001d044555_T019:6 Zm00001d044555_T016:6 Zm00001d044555_T009:6 Zm00001d044555_T004:6 Zm00001d044555_T012:6 Zm00001d044555_T013:6 Zm00001d044555_T018:6 Zm00001d044555_T006:6

			
						 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  
						
							GAACTCTCTTGTGGTGCAGACTGGTTTTCTTGGTTGTTTTGGTACGAAGGTGGATGCCATTGAA
TACTACACATCAGAAATTGAGAGGATAGAAAATGAAataaattcaatagaattttctcctaagc
tatttaaaggacaactatggctacaattcaagatataggactctctgcggctatcaacataatg
ggtgctgt

									
								

					

						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: 944
Transcript exons: 231676894-231677251,231677821-231677967,231678382-231678
517,231678718-231678819,231679118-231679237,231679358-23
1679438
ATAAATTCAATAGAATTTTCTCCTAAGCTATTTAAAGGACAACTATGGCTACAATTCAAGATAT
AGGACTCTCTGCGGCTATCAACATAATGGGTGCTGTACTGTTCCTAGTTGCATTTGCTTTCCTT
CGACTGCAGCCAATCAATGATAGGGTTTACTTCCCAAAATGGTACCTCAAAGGTGCAAGAGAGA
GTCCAAGTCATGGGGGTACATTTGTCCGGAAGTTTGTCAATTTGGACATGCGTTCATACTTGAA
ATTTTTAAGTTGGGTGCCTGCTGCTCTCAAAATGCCTGAGGATGAGTTGATTAGCCATGCCGGT
CTGGATTCAGCTGTGTATCTGAGGATTTACTTGGTCGGACTTAAAATATTTGCTCCAATCTCAG
TTCTAGCTTTCATTGTTCTTGTCCCTGTTAATTGGACCAATGATACTCTGCAATTCTCGAAGTT
AGAGCACAGCAATGTTGATAAGCTTTCAATATCAAACATACCAGTTGGATCAAAAAGGTTTATA
GCCCACTTGGCAATGGCGTATGTTTTCACATTTTGGACCTGCTATGTACTGTTACGTGAGTATG
AAGTAGTTGCAAAGATGAGACTGCGATTTCTTTCATCAGAGAAACGCAGACCAGATCAGTTCAC
GGTCCTTGTGCGGAATATACCGCCTGATCCAGATGAATCAATTAGTGAGCTTGTGGAACATTTC
TTTCTTGTGAATCATCCTGGTCACTATCTGACACATCAGGTGGTTTACAATGCAAATAAACTTG
CTAAATTGGTGAAAGAGAAAGCAAAGATGCATAATTGGCTTGACTACTATCAGCTGAGATTTGA
AAGGAATGCATCTAAAAGGCCTACTACTAAGACTGGTTTTCTTGGTTGTTTTGGTACGAAGGTG
GATGCCATTGAATACTACACATCAGAAATTGAGAGGATAGAAAATGAA
						
					

						Genomic sequence
						
							ATAAATTCAATAGAATTTTCTCCTAAGCTATTTAAAGGACAACTATGGCTACAATTCAAGATAT
AGGACTCTCTGCGGCTATCAACATAATGGGTGCTGTACTGTTCCTAGTTGCATTTGCTTTCCTT
CGACTGCAGCCAATCAATGATAGGGTTTACTTCCCAAAATGGTACCTCAAAGGTGCAAGAGAGA
GTCCAAGTCATGGGGGTACATTTGTCCGGAAGTTTGTCAATTTGGACATGCGTTCATACTTGAA
ATTTTTAAGTTGGGTGCCTGCTGCTCTCAAAATGCCTGAGGATGAGTTGATTAGCCATGCCGGT
CTGGATTCAGCTGTGTATCTGAGGATTTACTTGGTCGGGTATGTGACTTGTACACCATGTACTG
TAGGCATGTTTTAAGCTTTTGTTTGTCATATCAGTTTCTCCAATTGTACCATAGGTGGGGGCGT
TATTAGTTATTACTACCAGTTTCCATCAATGGATAATTAGGTCTCCATTGGTCTAGGCATAGTT
GTAAATAGAGCCTCGGTTTACAAATGGGGAATCAACCTCATAATGAGCATTGGTTATTGTATTA
CCCTGCTACACTCCAGACAACATGGCAAGCTAGGCAAAAGAATGAACTGGTGCTGCCAATTTTA
TTCCTAGTTACATTGGCTAATTCAATTCTAGGTCTTTGCTCTATTTTATTATGTCAGCTGCTCT
ATATTAGGTCACTAGTTTGCCAGTTGCATCTAGTCTTTAGGATTTTCAGATAAGGGAATTTACT
CACTTTGATATGTCTACGGTTTATCAGTTGTTTTATACCTACCCACCAAATGTTTCGTGGAATC
AAAACATTTGTACTTTATTCCCTTTGGTTCACTGATTGACACCCATCTTATTTTTTCTTTACAT
GTACTTATTTACTTTGTTTCACTTGTTACAGACTTAAAATATTTGCTCCAATCTCAGTTCTAGC
TTTCATTGTTCTTGTCCCTGTTAATTGGACCAATGATACTCTGCAATTCTCGAAGTTAGAGCAC
AGCAATGTTGATAAGCTTTCAATATCAAACATACCAGTTGGATCAAAAAGGTTAGCACTTGTTC
TTTGTTTTTGCAACCATGATTCTTTGGGCCATTGCCTTGTATCCTTTTCTATTGATAGGTTCAG
GAAAGTTGTAAAATTGATGTAAAGAAGTTATATGGATGGGACTGCGCAATATGAACTGCTATCC
AGCCTCTGACAGAAACTGATTTTGGATAGCAAAAATGTGGTAGATTGCACATGGGAGAAAAATT
AGGAACCAAAGTTCATAATGTAGAGTACACAGTACAAATTTGCACTTAAAAATATTTCAAGTTC
AACCATTAGATTTAGGGAAATGGTTTCAGATTCTAAAATAGTTTCAGAGTTTACAATCAATACA
CCTTGTCATTAAAATTAGGGATTGCAGTTTTGAGTTCATATTGACTGCTCATGAGTCCTAACCA
ATTTCTCTTTGTGAAGGTTTATAGCCCACTTGGCAATGGCGTATGTTTTCACATTTTGGACCTG
CTATGTACTGTTACGTGAGTATGAAGTAGTTGCAAAGATGAGACTGCGATTTCTTTCATCAGAG
AAACGCAGACCAGATCAGTTCACGGTATGACTAACCTATGATTGAGTTATGCCTTGAACACATA
GTGCTATCCAGATACTTAAAGTTGAAATTTGTACTGTTACTGCATTTCACATAGATTTTGAGGC
GAGAACACGTTTCTTTTTTCCCCTAAACTGATCAAGTGGATTTTGTTGTTATGGGTATGACTTG
CTGTATGCGCTTACTCAATGATTATATTTTAGGTCCTTGTGCGGAATATACCGCCTGATCCAGA
TGAATCAATTAGTGAGCTTGTGGAACATTTCTTTCTTGTGAATCATCCTGGTCACTATCTGACA
CATCAGGTAATAATAATTTATAACATAATTCATGAATATTCATGTTATGATCCCTTATTTTATT
CTAGGAGTTTATCTATGGATTCTCCGCCGTGTAGTATGGTTTTGGTGTTTCTATGTTTGTACAG
ATGCATGTTTCACAATTTTGGGTAGATCCTTGTTTTCTTCATTTAAGTTTGGTACATATGATTC
CTATTTAGATGGATTTTTGTTTGATTCCTTGTAATTTATTTTTAAAATTGTTTTTCTGTAAAAC
AGAATCAGACATGCTATGTTTGATTTATTGCATGCACTTATTTTGTAGGTGGTTTACAATGCAA
ATAAACTTGCTAAATTGGTGAAAGAGAAAGCAAAGATGCATAATTGGCTTGACTACTATCAGCT
GAGATTTGAAAGGAATGCATCTAAAAGGCCTACTACTAAGGTTATTCCACACACAAAAAATAGC
TGCTCTTTCCCTTCATATGGTTTTGTTATATTTGAATCAAATATGAACCCTTTTAAAAAATTTA
TTCTATTTTTTTGGAACTCTCTTGTGGTGCAGACTGGTTTTCTTGGTTGTTTTGGTACGAAGGT
GGATGCCATTGAATACTACACATCAGAAATTGAGAGGATAGAAAATGAA
						
					

			
		

Sequences
Splice junction sequence	GAACTCTCTTGTGGTGCAGACTGGTTTTCTTGGTTGTTTTGGTACGAAGGTGGATGCCATTGAA TACTACACATCAGAAATTGAGAGGATAGAAAATGAAataaattcaatagaattttctcctaagc tatttaaaggacaactatggctacaattcaagatataggactctctgcggctatcaacataatg ggtgctgt
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: 944 Transcript exons: 231676894-231677251,231677821-231677967,231678382-231678 517,231678718-231678819,231679118-231679237,231679358-23 1679438 ATAAATTCAATAGAATTTTCTCCTAAGCTATTTAAAGGACAACTATGGCTACAATTCAAGATAT AGGACTCTCTGCGGCTATCAACATAATGGGTGCTGTACTGTTCCTAGTTGCATTTGCTTTCCTT CGACTGCAGCCAATCAATGATAGGGTTTACTTCCCAAAATGGTACCTCAAAGGTGCAAGAGAGA GTCCAAGTCATGGGGGTACATTTGTCCGGAAGTTTGTCAATTTGGACATGCGTTCATACTTGAA ATTTTTAAGTTGGGTGCCTGCTGCTCTCAAAATGCCTGAGGATGAGTTGATTAGCCATGCCGGT CTGGATTCAGCTGTGTATCTGAGGATTTACTTGGTCGGACTTAAAATATTTGCTCCAATCTCAG TTCTAGCTTTCATTGTTCTTGTCCCTGTTAATTGGACCAATGATACTCTGCAATTCTCGAAGTT AGAGCACAGCAATGTTGATAAGCTTTCAATATCAAACATACCAGTTGGATCAAAAAGGTTTATA GCCCACTTGGCAATGGCGTATGTTTTCACATTTTGGACCTGCTATGTACTGTTACGTGAGTATG AAGTAGTTGCAAAGATGAGACTGCGATTTCTTTCATCAGAGAAACGCAGACCAGATCAGTTCAC GGTCCTTGTGCGGAATATACCGCCTGATCCAGATGAATCAATTAGTGAGCTTGTGGAACATTTC TTTCTTGTGAATCATCCTGGTCACTATCTGACACATCAGGTGGTTTACAATGCAAATAAACTTG CTAAATTGGTGAAAGAGAAAGCAAAGATGCATAATTGGCTTGACTACTATCAGCTGAGATTTGA AAGGAATGCATCTAAAAGGCCTACTACTAAGACTGGTTTTCTTGGTTGTTTTGGTACGAAGGTG GATGCCATTGAATACTACACATCAGAAATTGAGAGGATAGAAAATGAA
Genomic sequence	ATAAATTCAATAGAATTTTCTCCTAAGCTATTTAAAGGACAACTATGGCTACAATTCAAGATAT AGGACTCTCTGCGGCTATCAACATAATGGGTGCTGTACTGTTCCTAGTTGCATTTGCTTTCCTT CGACTGCAGCCAATCAATGATAGGGTTTACTTCCCAAAATGGTACCTCAAAGGTGCAAGAGAGA GTCCAAGTCATGGGGGTACATTTGTCCGGAAGTTTGTCAATTTGGACATGCGTTCATACTTGAA ATTTTTAAGTTGGGTGCCTGCTGCTCTCAAAATGCCTGAGGATGAGTTGATTAGCCATGCCGGT CTGGATTCAGCTGTGTATCTGAGGATTTACTTGGTCGGGTATGTGACTTGTACACCATGTACTG TAGGCATGTTTTAAGCTTTTGTTTGTCATATCAGTTTCTCCAATTGTACCATAGGTGGGGGCGT TATTAGTTATTACTACCAGTTTCCATCAATGGATAATTAGGTCTCCATTGGTCTAGGCATAGTT GTAAATAGAGCCTCGGTTTACAAATGGGGAATCAACCTCATAATGAGCATTGGTTATTGTATTA CCCTGCTACACTCCAGACAACATGGCAAGCTAGGCAAAAGAATGAACTGGTGCTGCCAATTTTA TTCCTAGTTACATTGGCTAATTCAATTCTAGGTCTTTGCTCTATTTTATTATGTCAGCTGCTCT ATATTAGGTCACTAGTTTGCCAGTTGCATCTAGTCTTTAGGATTTTCAGATAAGGGAATTTACT CACTTTGATATGTCTACGGTTTATCAGTTGTTTTATACCTACCCACCAAATGTTTCGTGGAATC AAAACATTTGTACTTTATTCCCTTTGGTTCACTGATTGACACCCATCTTATTTTTTCTTTACAT GTACTTATTTACTTTGTTTCACTTGTTACAGACTTAAAATATTTGCTCCAATCTCAGTTCTAGC TTTCATTGTTCTTGTCCCTGTTAATTGGACCAATGATACTCTGCAATTCTCGAAGTTAGAGCAC AGCAATGTTGATAAGCTTTCAATATCAAACATACCAGTTGGATCAAAAAGGTTAGCACTTGTTC TTTGTTTTTGCAACCATGATTCTTTGGGCCATTGCCTTGTATCCTTTTCTATTGATAGGTTCAG GAAAGTTGTAAAATTGATGTAAAGAAGTTATATGGATGGGACTGCGCAATATGAACTGCTATCC AGCCTCTGACAGAAACTGATTTTGGATAGCAAAAATGTGGTAGATTGCACATGGGAGAAAAATT AGGAACCAAAGTTCATAATGTAGAGTACACAGTACAAATTTGCACTTAAAAATATTTCAAGTTC AACCATTAGATTTAGGGAAATGGTTTCAGATTCTAAAATAGTTTCAGAGTTTACAATCAATACA CCTTGTCATTAAAATTAGGGATTGCAGTTTTGAGTTCATATTGACTGCTCATGAGTCCTAACCA ATTTCTCTTTGTGAAGGTTTATAGCCCACTTGGCAATGGCGTATGTTTTCACATTTTGGACCTG CTATGTACTGTTACGTGAGTATGAAGTAGTTGCAAAGATGAGACTGCGATTTCTTTCATCAGAG AAACGCAGACCAGATCAGTTCACGGTATGACTAACCTATGATTGAGTTATGCCTTGAACACATA GTGCTATCCAGATACTTAAAGTTGAAATTTGTACTGTTACTGCATTTCACATAGATTTTGAGGC GAGAACACGTTTCTTTTTTCCCCTAAACTGATCAAGTGGATTTTGTTGTTATGGGTATGACTTG CTGTATGCGCTTACTCAATGATTATATTTTAGGTCCTTGTGCGGAATATACCGCCTGATCCAGA TGAATCAATTAGTGAGCTTGTGGAACATTTCTTTCTTGTGAATCATCCTGGTCACTATCTGACA CATCAGGTAATAATAATTTATAACATAATTCATGAATATTCATGTTATGATCCCTTATTTTATT CTAGGAGTTTATCTATGGATTCTCCGCCGTGTAGTATGGTTTTGGTGTTTCTATGTTTGTACAG ATGCATGTTTCACAATTTTGGGTAGATCCTTGTTTTCTTCATTTAAGTTTGGTACATATGATTC CTATTTAGATGGATTTTTGTTTGATTCCTTGTAATTTATTTTTAAAATTGTTTTTCTGTAAAAC AGAATCAGACATGCTATGTTTGATTTATTGCATGCACTTATTTTGTAGGTGGTTTACAATGCAA ATAAACTTGCTAAATTGGTGAAAGAGAAAGCAAAGATGCATAATTGGCTTGACTACTATCAGCT GAGATTTGAAAGGAATGCATCTAAAAGGCCTACTACTAAGGTTATTCCACACACAAAAAATAGC TGCTCTTTCCCTTCATATGGTTTTGTTATATTTGAATCAAATATGAACCCTTTTAAAAAATTTA TTCTATTTTTTTGGAACTCTCTTGTGGTGCAGACTGGTTTTCTTGGTTGTTTTGGTACGAAGGT GGATGCCATTGAATACTACACATCAGAAATTGAGAGGATAGAAAATGAA

			
						 Conservation Information
					
						Conserved circRNAs
						
							NA						
					
						PMCS
						0.159502016

Conservation Information
Conserved circRNAs	NA
PMCS	0.159502016

			
						 Functional Information
					
						Coding potential
						Y
					
						Potential coding position
						
							231676939-231676956(+)
						
						Potential amino acid sequence
						
							MATIQDIGLSAAINIMGAVLFLVAFAFLRLQPINDRVYFPKWYLKGARESPSHGGTFVRKFVNL
DMRSYLKFLSWVPAALKMPEDELISHAGLDSAVYLRIYLVGLKIFAPISVLAFIVLVPVNWTND
TLQFSKLEHSNVDKLSISNIPVGSKRFIAHLAMAYVFTFWTCYVLLREYEVVAKMRLRFLSSEK
RRPDQFTVLVRNIPPDPDESISELVEHFFLVNHPGHYLTHQVVYNANKLAKLVKEKAKMHNWLD
YYQLRFERNASKRPTTKTGFLGCFGTKVDAIEYYTSEIERIENEINSIEFSPKLFKGQLWLQFK
I*(+)
						
						Sponge-miRNAs
						
							NA						
					
						circRNA-miRNA-mRNA network
						 VISUALIZATION
					
						Potential function description
						NA

Functional Information
Coding potential	Y
Potential coding position	231676939-231676956(+)
Potential amino acid sequence	MATIQDIGLSAAINIMGAVLFLVAFAFLRLQPINDRVYFPKWYLKGARESPSHGGTFVRKFVNL DMRSYLKFLSWVPAALKMPEDELISHAGLDSAVYLRIYLVGLKIFAPISVLAFIVLVPVNWTND TLQFSKLEHSNVDKLSISNIPVGSKRFIAHLAMAYVFTFWTCYVLLREYEVVAKMRLRFLSSEK RRPDQFTVLVRNIPPDPDESISELVEHFFLVNHPGHYLTHQVVYNANKLAKLVKEKAKMHNWLD YYQLRFERNASKRPTTKTGFLGCFGTKVDAIEYYTSEIERIENEINSIEFSPKLFKGQLWLQFK I*(+)
Sponge-miRNAs	NA
circRNA-miRNA-mRNA network	VISUALIZATION
Potential function description	NA

			
						 Other Information
					
						References
						Ma et al., 2021b

circRNA

Detail information of Zm00001d044555_circ_g.2

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